g.arboreum_cottongen_reftransV1_0021466, g.arboreum_cottongen_reftransV1_0021466 (contig) Gossypium arboreum

Overview


Name	g.arboreum_cottongen_reftransV1_0021466
Unique Name	g.arboreum_cottongen_reftransV1_0021466
Type	contig
Organism	Gossypium arboreum (Tree cotton)
Sequence length	960

Alignments

The following features are aligned


Aligned Feature	Feature Type	Alignment Location
Chr11	chromosome	g.arboreum_cottongen_reftransV1_0021466:1..960 . Chr11:80974326..80977436 +

Analyses

This contig is derived from or has results from the following analyses


Analysis Name	Date Performed
Gossypium arboreum CottonGen RefTrans V1	2016-11-14
InterProScan analysis for Gossypium arboreum CottonGen RefTrans V1	2016-11-14
Homology Analysis for Gossypium arboreum CottonGen RefTrans V1 vs TrEMBL	2016-11-15
Homology Analysis for Gossypium arboreum CottonGen RefTrans V1 vs SwissProt	2016-11-15

Homology

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BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy TrEMBL
Match: A0A0B0Q234_GOSAR (Dna-directed rna polymerases i, ii, and iii subunit rpabc1 OS=Gossypium arboreum GN=F383_16361 PE=4 SV=1)

HSP 1 Score: 465.692 bits (1197), Expect = 6.202e-163
Identity = 228/228 (100.00%), Postives = 228/228 (100.00%), Query Frame = -2

Query:  192 MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCVW 875
            MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCVW
Sbjct:    1 MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCVW 228

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy TrEMBL
Match: A0A0D2NJ30_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_006G1333002 PE=4 SV=1)

HSP 1 Score: 461.84 bits (1187), Expect = 2.412e-161
Identity = 226/228 (99.12%), Postives = 227/228 (99.56%), Query Frame = -2

Query:  192 MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCVW 875
            MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRY+LSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKR LVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCVW
Sbjct:    1 MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRYYLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRTLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCVW 228

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy TrEMBL
Match: A0A0D2RU93_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_006G1333002 PE=4 SV=1)

HSP 1 Score: 457.603 bits (1176), Expect = 1.196e-159
Identity = 226/229 (98.69%), Postives = 227/229 (99.13%), Query Frame = -2

Query:  192 MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRM-LVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCVW 875
            MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRY+LSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKR  LVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCVW
Sbjct:    1 MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRYYLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRQTLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCVW 229

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy TrEMBL
Match: A0A061EW60_THECC (Eukaryotic rpb5 RNA polymerase subunit family protein isoform 1 OS=Theobroma cacao GN=TCM_024387 PE=4 SV=1)

HSP 1 Score: 421.779 bits (1083), Expect = 1.492e-145
Identity = 201/228 (88.16%), Postives = 220/228 (96.49%), Query Frame = -2

Query:  192 MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCVW 875
            MEG GLEGDGSNGEALGKCLSG+VDDGSTESHRY+LSRRTVLEMLRDRGYAVP +EI+LSL EFRAI+GQSPDFDRL+LS THKTD SKR+LVVFYGPG+VKVSGIRLIAGLIT+KE+LTGLIL++QNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKP+H+VLTE EKQ+LLQKYSIEEKQLPRLLKKDAIARYYG+E+GQV+KV Y GEIT+SHVTYRCVW
Sbjct:    1 MEGNGLEGDGSNGEALGKCLSGVVDDGSTESHRYYLSRRTVLEMLRDRGYAVPISEINLSLQEFRAIYGQSPDFDRLRLSATHKTDPSKRILVVFYGPGMVKVSGIRLIAGLITNKESLTGLILVLQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPKHQVLTEQEKQKLLQKYSIEEKQLPRLLKKDAIARYYGYERGQVVKVMYDGEITQSHVTYRCVW 228

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy TrEMBL
Match: A0A0D2SP67_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_006G1333002 PE=4 SV=1)

HSP 1 Score: 381.333 bits (978), Expect = 6.827e-130
Identity = 190/204 (93.14%), Postives = 192/204 (94.12%), Query Frame = -2

Query:  264 MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFE 875
            MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRY+LSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKR LVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQ   L    A+  YY  E
Sbjct:    1 MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRYYLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRTLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQAAILTVGRALVEYYSCE 204

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy TrEMBL
Match: A0A0D2RMD1_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_006G1333002 PE=4 SV=1)

HSP 1 Score: 376.711 bits (966), Expect = 4.793e-128
Identity = 185/187 (98.93%), Postives = 186/187 (99.47%), Query Frame = -2

Query:  315 MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQ 875
            MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRY+LSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKR LVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQ
Sbjct:    1 MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRYYLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRTLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQ 187

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy TrEMBL
Match: A0A0D2Q0F3_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_006G1333002 PE=4 SV=1)

HSP 1 Score: 375.555 bits (963), Expect = 1.200e-127
Identity = 185/188 (98.40%), Postives = 187/188 (99.47%), Query Frame = -2

Query:  312 MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQL 875
            MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRY+LSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKR LVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQ+
Sbjct:    1 MEGIGLEGDGSNGEALGKCLSGLVDDGSTESHRYYLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRTLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQV 188

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy TrEMBL
Match: B9ST46_RICCO (DNA-directed RNA polymerase II, putative OS=Ricinus communis GN=RCOM_0248850 PE=4 SV=1)

HSP 1 Score: 355.91 bits (912), Expect = 1.510e-119
Identity = 165/217 (76.04%), Postives = 191/217 (88.02%), Query Frame = -2

Query:  192 NGEALGKCLSGLVDDGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCVW 842
            N E LGKC S   DDG+ E+HRY+LSRRTVLEMLRDRGY+VP++EIDLSL EFRAIHG +PD DRLK S TH +D SKRMLV+F GPG++KVS IR IAG I +K++LTGLIL++QN ITNQA+KA+DLF FKVE+FQITDLLVNITKHVLKP+H+VLT+ EKQ+LL+ Y IEEKQLPRLL+KDAIARYYG EKGQV+KVTY GEITESHVTYRCVW
Sbjct:   22 NMEGLGKCFSSYADDGTHETHRYYLSRRTVLEMLRDRGYSVPSSEIDLSLQEFRAIHGPNPDIDRLKFSATHTSDPSKRMLVLFGGPGIIKVSTIRAIAGQIVNKDSLTGLILVLQNQITNQAMKAVDLFKFKVEMFQITDLLVNITKHVLKPKHQVLTDREKQKLLKDYCIEEKQLPRLLRKDAIARYYGLEKGQVVKVTYSGEITESHVTYRCVW 238

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy TrEMBL
Match: A0A067K1X8_JATCU (Uncharacterized protein OS=Jatropha curcas GN=JCGZ_22486 PE=4 SV=1)

HSP 1 Score: 353.984 bits (907), Expect = 9.206e-119
Identity = 168/225 (74.67%), Postives = 196/225 (87.11%), Query Frame = -2

Query:  192 GLEGDGS-NGEALGKCLSGLVDDGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCVW 863
            G E +GS +  ALG+CLS   D+GS ES RY+LSRRTVLEML+DRGYA+P+ +I++SL EFRAIHGQ PD DRLK+S  HK++ +KRMLV+F GPGVVKVS +R+IA  I +K+ LTGLILI+QN ITNQALKA+DLF FKVE+FQITDLLVNITKHVLKP+H VLTE EKQ+LL+KYSIEEKQLPRLLKKDAIARYYG EKGQV+KVTY G+ITESHVTYRCVW
Sbjct:   14 GAETNGSFDMGALGRCLSSYGDEGSAESCRYYLSRRTVLEMLKDRGYAIPSVDINISLQEFRAIHGQDPDIDRLKISAIHKSNPNKRMLVIFCGPGVVKVSSVRVIAAQIVNKDILTGLILILQNQITNQALKAMDLFKFKVEMFQITDLLVNITKHVLKPKHEVLTEREKQKLLKKYSIEEKQLPRLLKKDAIARYYGLEKGQVVKVTYSGDITESHVTYRCVW 238

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy TrEMBL
Match: B9IHS9_POPTR (Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0016s03800g PE=4 SV=2)

HSP 1 Score: 343.969 bits (881), Expect = 7.967e-115
Identity = 162/221 (73.30%), Postives = 196/221 (88.69%), Query Frame = -2

Query:  192 DGSNG-EALGKCLSGLVDDGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCVW 851
            +GS G E+LG+CLS  VD+GSTESHRY+LSRRTVLEML+DRGY+VP++EID+SL +FR ++GQ+PD + LK S THK+D SKRMLV+F G GVVKV  IRLI   IT +++LTGLIL++QN+ITNQA+KALDLF FK+EIFQITDLLVNITKH+LKP+H+VL+E  KQRLL+KYSIEEKQLPRLLKKDAI+RYYG E+GQV+KVTY G+IT SHVTYRCVW
Sbjct:   23 NGSFGMESLGRCLSSFVDEGSTESHRYYLSRRTVLEMLKDRGYSVPSSEIDISLQDFRGVYGQNPDIELLKFSATHKSDPSKRMLVIFCGLGVVKVGMIRLITVQITDRDSLTGLILVLQNNITNQAMKALDLFKFKIEIFQITDLLVNITKHILKPKHQVLSEQAKQRLLKKYSIEEKQLPRLLKKDAISRYYGLERGQVVKVTYDGDITGSHVTYRCVW 243

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy Swiss-Prot
Match: RPE5A_ARATH (DNA-directed RNA polymerase V subunit 5A OS=Arabidopsis thaliana GN=NRPE5A PE=1 SV=1)

HSP 1 Score: 303.138 bits (775), Expect = 5.800e-101
Identity = 138/210 (65.71%), Postives = 175/210 (83.33%), Query Frame = -2

Query:  192 CLSGLVDDGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCVW 821
            CLS  VD  S ESHRY+L+RR  L+MLRDRGY V + +I+LSLH+FR ++G+ PD DRL++S  H++DS+K++ +VF+G  +VKV+ IR +   I S+ET+TGLIL++QNH+TNQALKA++LFSFKVEIFQITDLLVNITKH LKPQH+VL + EK  LL+K+SIEEKQLPR+ KKDAI RYYG EKGQV+KV Y GE+TESHV +RCVW
Sbjct:   13 CLSKYVDLSSEESHRYYLARRNGLQMLRDRGYEVSDEDINLSLHDFRTVYGERPDVDRLRISALHRSDSTKKVKIVFFGTSMVKVNAIRSVVADILSQETITGLILVLQNHVTNQALKAIELFSFKVEIFQITDLLVNITKHSLKPQHQVLNDEEKTTLLKKFSIEEKQLPRISKKDAIVRYYGLEKGQVVKVNYRGELTESHVAFRCVW 222

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy Swiss-Prot
Match: RPD5B_ARATH (DNA-directed RNA polymerases IV and V subunit 5B OS=Arabidopsis thaliana GN=NRPD5B PE=1 SV=1)

HSP 1 Score: 277.33 bits (708), Expect = 6.673e-91
Identity = 126/204 (61.76%), Postives = 169/204 (82.84%), Query Frame = -2

Query:  195 VDDGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCV 806
            +   S E H+Y+L+RRT +EMLRDRGY V + +I+LSL +FRA++G+ PD D L++S  H+ DSSK++ VVF G G+VKV+ +R+IA  + S+E +TGLIL++Q+HITNQALKA++LFSFKVE+F+ITDLLVN++KHVL+P+H+VL + EK+ LL+K+SIEEKQLPRL  KD I RYYG E GQV+KVTY  E++ESHVTYRCV
Sbjct:   14 ISKSSVECHKYYLARRTTMEMLRDRGYDVSDEDINLSLQQFRALYGEHPDVDLLRISAKHRFDSSKKISVVFCGTGIVKVNAMRVIAADVLSRENITGLILVLQSHITNQALKAVELFSFKVELFEITDLLVNVSKHVLRPKHQVLNDKEKESLLKKFSIEEKQLPRLSSKDPIVRYYGLETGQVMKVTYKDELSESHVTYRCV 217

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy Swiss-Prot
Match: RPE5C_ARATH (DNA-directed RNA polymerase V subunit 5C OS=Arabidopsis thaliana GN=NRPE5C PE=2 SV=1)

HSP 1 Score: 199.134 bits (505), Expect = 2.305e-60
Identity = 97/219 (44.29%), Postives = 144/219 (65.75%), Query Frame = -2

Query:  195 DGSNGEALGKCLSGLVDDGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCV 851
            DG+N      C+S   D G  ES R++L+R T  EMLRDRGY V   E+ L+L EFR++ G+ P+ +RL++ V  ++D  K++LVVF G   + V  +R +   I++   L  +IL++Q+ + + A KAL  F F VE F I DLLVNITKH+ +P+  +L + EK++LL+K+++E+KQLP L +KD+  RYYG +K QV+K+TY  E     VTYRC+
Sbjct:   20 DGTN------CISKTEDTGGIESKRFYLARTTAFEMLRDRGYEVNEAELSLTLSEFRSVFGEKPELERLRICVPLRSDPKKKILVVFMGTEPITVKSVRALHIQISNNVGLHAMILVLQSKMNHFAQKALTTFPFTVETFPIEDLLVNITKHIQQPKIEILNKEEKEQLLRKHALEDKQLPYLQEKDSFVRYYGLKKKQVVKITYSKEPVGDFVTYRCI 232

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy Swiss-Prot
Match: RPB5A_ARATH (DNA-directed RNA polymerases II and IV subunit 5A OS=Arabidopsis thaliana GN=NRPB5A PE=1 SV=1)

HSP 1 Score: 129.413 bits (324), Expect = 4.643e-34
Identity = 71/200 (35.50%), Postives = 120/200 (60.00%), Query Frame = -2

Query:  195 ESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDRLKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFS--FKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCV 788
            E  R +  ++T+++MLRDRGY + ++E+ ++  +F   HG +   + L      + D+S ++ + F     V V  +++    + S E +   IL+VQ ++T  A   +   S  F +E+FQ  ++LVNI +HVL P+H+VLT  EK+ LL++Y+++E QLPR+   D IARY+G ++GQV+K+    E    +VTYR V
Sbjct:    6 ELKRLYRIQKTLMQMLRDRGYFIADSELTMTKQQFIRKHGDNMKREDLVTLKAKRNDNSDQLYIFFPDEAKVGVKTMKMYTNRMKS-ENVFRAILVVQQNLTPFARTCISEISSKFHLEVFQEAEMLVNIKEHVLVPEHQVLTTEEKKTLLERYTVKETQLPRIQVTDPIARYFGLKRGQVVKIIRPSETAGRYVTYRYV 204

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy Swiss-Prot
Match: RPAB1_PONAB (DNA-directed RNA polymerases I, II, and III subunit RPABC1 OS=Pongo abelii GN=POLR2E PE=2 SV=1)

HSP 1 Score: 127.102 bits (318), Expect = 3.428e-33
Identity = 73/209 (34.93%), Postives = 117/209 (55.98%), Query Frame = -2

Query:  195 DGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDR-----LKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFK--VEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCV 800
            D   E++R +  R+T++++  DRGY V   E+D +L EFRA  G  P   R     L + V H  D + +M V F     V +  I++    +  +E +T  +++VQ  +T  A ++L   + K  +E F   +LL+NIT+H L P+H V+T+ E   LL +Y + E QLPR+   D +ARY+G ++GQV+K+    E    ++TYR V
Sbjct:    2 DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFRAQFGDKPSEGRPRRTDLTVLVAHNDDPTDQMFVFFPEEPKVGIKTIKVYCQRM-QEENITRALIVVQQGMTPSAKQSLVDMAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQLPRIQAGDPVARYFGIKRGQVVKIIRPSETAGRYITYRLV 209

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy Swiss-Prot
Match: RPAB1_HUMAN (DNA-directed RNA polymerases I, II, and III subunit RPABC1 OS=Homo sapiens GN=POLR2E PE=1 SV=4)

HSP 1 Score: 125.946 bits (315), Expect = 1.084e-32
Identity = 72/209 (34.45%), Postives = 117/209 (55.98%), Query Frame = -2

Query:  195 DGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDR-----LKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFK--VEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCV 800
            D   E++R +  R+T++++  DRGY V   E+D +L EF+A  G  P   R     L + V H  D + +M V F     V +  I++    +  +E +T  +++VQ  +T  A ++L   + K  +E F   +LL+NIT+H L P+H V+T+ E   LL +Y + E QLPR+   D +ARY+G ++GQV+K+    E    ++TYR V
Sbjct:    2 DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQSGDKPSEGRPRRTDLTVLVAHNDDPTDQMFVFFPEEPKVGIKTIKVYCQRM-QEENITRALIVVQQGMTPSAKQSLVDMAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQLPRIQAGDPVARYFGIKRGQVVKIIRPSETAGRYITYRLV 209

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy Swiss-Prot
Match: RPAB1_RAT (DNA-directed RNA polymerases I, II, and III subunit RPABC1 OS=Rattus norvegicus GN=Polr2e PE=2 SV=1)

HSP 1 Score: 125.561 bits (314), Expect = 1.201e-32
Identity = 72/209 (34.45%), Postives = 118/209 (56.46%), Query Frame = -2

Query:  195 DGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDR-----LKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKAL-DLFS-FKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCV 800
            D   E++R +  R+T++++  DRGY V   E+D +L EF+A  G  P   R     L + V H  D + +M V F     V +  I++    +  +E +T  +++VQ  +T  A ++L D+   + +E F   +LL+NIT+H L P+H V+T+ E   LL +Y + E QLPR+   D +ARY+G ++GQV+K+    E    ++TYR V
Sbjct:    2 DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVLVAHNDDPTDQMFVFFPEEPKVGIKTIKVYCQRM-QEENITRALIVVQQGMTPSAKQSLVDMAPKYVLEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRESQLPRIQAGDPVARYFGIKRGQVVKIIRPSETAGRYITYRLV 209

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy Swiss-Prot
Match: RPAB1_MOUSE (DNA-directed RNA polymerases I, II, and III subunit RPABC1 OS=Mus musculus GN=Polr2e PE=2 SV=1)

HSP 1 Score: 125.561 bits (314), Expect = 1.201e-32
Identity = 72/209 (34.45%), Postives = 118/209 (56.46%), Query Frame = -2

Query:  195 DGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDR-----LKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKAL-DLFS-FKVEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCV 800
            D   E++R +  R+T++++  DRGY V   E+D +L EF+A  G  P   R     L + V H  D + +M V F     V +  I++    +  +E +T  +++VQ  +T  A ++L D+   + +E F   +LL+NIT+H L P+H V+T+ E   LL +Y + E QLPR+   D +ARY+G ++GQV+K+    E    ++TYR V
Sbjct:    2 DDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVLVAHNDDPTDQMFVFFPEEPKVGIKTIKVYCQRM-QEENITRALIVVQQGMTPSAKQSLVDMAPKYVLEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRESQLPRIQAGDPVARYFGIKRGQVVKIIRPSETAGRYITYRLV 209

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy Swiss-Prot
Match: RPAB1_CAEEL (DNA-directed RNA polymerases I, II, and III subunit RPABC1 OS=Caenorhabditis elegans GN=rpb-5 PE=3 SV=1)

HSP 1 Score: 125.561 bits (314), Expect = 1.218e-32
Identity = 70/209 (33.49%), Postives = 117/209 (55.98%), Query Frame = -2

Query:  195 DGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDR-----LKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLITSKETLTGLILIVQNHITNQALKALDLFSFK--VEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCV 800
            D   E++R +  R+TVL+M+ DRGY V   E+D  L  F+  +G  P   +     L + V H  D + +M V F     + +  I+ I   +  ++ ++  I++VQ  +T  A +++   + K  +E F   +L+VNIT+H L P+H V+T  EK  LL +Y +++ QLPR+ + D +ARY+G  +GQV+K+    E    ++TYR V
Sbjct:    3 DDELETYRLWRIRKTVLQMVHDRGYLVAQDELDQPLETFKVQYGDRPSEKKPARSDLTILVAHNDDPADQMFVFFPEDAKIGIKTIKAICQQM-QEQNISRAIIVVQTGMTPSAKQSIGDMAPKYMLEHFLEAELMVNITEHELVPEHVVMTAEEKAELLARYKLKDSQLPRIQQCDPVARYFGLRRGQVVKIIRPSETAGRYITYRLV 210

[Close]

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy Swiss-Prot
Match: RPAB1_CAEBR (DNA-directed RNA polymerases I, II, and III subunit RPABC1 OS=Caenorhabditis briggsae GN=rpb-5 PE=3 SV=1)

HSP 1 Score: 124.79 bits (312), Expect = 2.473e-32
Identity = 73/211 (34.60%), Postives = 118/211 (55.92%), Query Frame = -2

Query:  195 DGSTESHRYFLSRRTVLEMLRDRGYAVPNTEIDLSLHEFRAIHGQSPDFDR-----LKLSVTHKTDSSKRMLVVFYGPGVVKVSGIRLIAGLI--TSKETLTGLILIVQNHITNQALKALDLFSFK--VEIFQITDLLVNITKHVLKPQHRVLTEHEKQRLLQKYSIEEKQLPRLLKKDAIARYYGFEKGQVIKVTYGGEITESHVTYRCV 800
            D   E++R +  R+TVL+M+ DRGY V   E+D  L  F+   G  P   +     L + V H  D + +M V F  P   K+ GI+ I  +     ++ ++  I++VQ  +T  A +++   + K  +E F   +L+VNIT+H L P+H V+T  EK  LL +Y +++ QLPR+ + D +ARY+G  +GQV+K+    E    ++TYR V
Sbjct:    3 DDELETYRLWRIRKTVLQMVHDRGYLVAQEELDQPLETFKETFGDRPSEKKPARSDLTILVAHNDDPADQMFVFF--PEDTKI-GIKTIKAICQQMQEQNISRAIIVVQTGMTPSAKQSIGDMAPKYMLEHFLEAELMVNITEHELVPEHVVMTAEEKAELLARYKLKDSQLPRIQQCDPVARYFGLRRGQVVKIIRPSETAGRYITYRLV 210

The following BLAST results are available for this feature:

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy TrEMBL
BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy Swiss-Prot

BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy TrEMBL
Analysis Date: 2016-11-15 (Homology Analysis for Gossypium arboreum CottonGen RefTrans V1 vs TrEMBL)
Total hits: 25


Match Name	E-value	Identity	Description
A0A0B0Q234_GOSAR	6.202e-163	100.00	Dna-directed rna polymerases i, ii, and iii subuni...	[more]
A0A0D2NJ30_GOSRA	2.412e-161	99.12	Uncharacterized protein OS=Gossypium raimondii GN=...	[more]
A0A0D2RU93_GOSRA	1.196e-159	98.69	Uncharacterized protein OS=Gossypium raimondii GN=...	[more]
A0A061EW60_THECC	1.492e-145	88.16	Eukaryotic rpb5 RNA polymerase subunit family prot...	[more]
A0A0D2SP67_GOSRA	6.827e-130	93.14	Uncharacterized protein OS=Gossypium raimondii GN=...	[more]
A0A0D2RMD1_GOSRA	4.793e-128	98.93	Uncharacterized protein OS=Gossypium raimondii GN=...	[more]
A0A0D2Q0F3_GOSRA	1.200e-127	98.40	Uncharacterized protein OS=Gossypium raimondii GN=...	[more]
B9ST46_RICCO	1.510e-119	76.04	DNA-directed RNA polymerase II, putative OS=Ricinu...	[more]
A0A067K1X8_JATCU	9.206e-119	74.67	Uncharacterized protein OS=Jatropha curcas GN=JCGZ...	[more]
B9IHS9_POPTR	7.967e-115	73.30	Uncharacterized protein OS=Populus trichocarpa GN=...	[more]

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BLAST of g.arboreum_cottongen_reftransV1_0021466 vs. ExPASy Swiss-Prot
Analysis Date: 2016-11-15 (Homology Analysis for Gossypium arboreum CottonGen RefTrans V1 vs SwissProt)
Total hits: 25


Match Name	E-value	Identity	Description
RPE5A_ARATH	5.800e-101	65.71	DNA-directed RNA polymerase V subunit 5A OS=Arabid...	[more]
RPD5B_ARATH	6.673e-91	61.76	DNA-directed RNA polymerases IV and V subunit 5B O...	[more]
RPE5C_ARATH	2.305e-60	44.29	DNA-directed RNA polymerase V subunit 5C OS=Arabid...	[more]
RPB5A_ARATH	4.643e-34	35.50	DNA-directed RNA polymerases II and IV subunit 5A ...	[more]
RPAB1_PONAB	3.428e-33	34.93	DNA-directed RNA polymerases I, II, and III subuni...	[more]
RPAB1_HUMAN	1.084e-32	34.45	DNA-directed RNA polymerases I, II, and III subuni...	[more]
RPAB1_RAT	1.201e-32	34.45	DNA-directed RNA polymerases I, II, and III subuni...	[more]
RPAB1_MOUSE	1.201e-32	34.45	DNA-directed RNA polymerases I, II, and III subuni...	[more]
RPAB1_CAEEL	1.218e-32	33.49	DNA-directed RNA polymerases I, II, and III subuni...	[more]
RPAB1_CAEBR	2.473e-32	34.60	DNA-directed RNA polymerases I, II, and III subuni...	[more]

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InterPro

Analysis Name: InterProScan analysis for Gossypium arboreum CottonGen RefTrans V1
Date Performed: 2016-11-14


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR005571	RNA polymerase, Rpb5, N-terminal	GENE3D	3.40.1340.10		coord: 32..162 e-value: 9.7E-30 score: 102.9
IPR005571	RNA polymerase, Rpb5, N-terminal	PFAM	PF03871	RNA_pol_Rpb5_N	coord: 36..117 e-value: 2.1E-19 score: 69.7
IPR005571	RNA polymerase, Rpb5, N-terminal	SUPERFAMILY	53036	Eukaryotic RPB5 N-terminal domain	coord: 36..163
IPR014381	DNA-directed RNA polymerase RPB5 subunit, eukaryote/virus	PIRSF	PIRSF000747	RPB5	coord: 30..235 e-value: 4.5E-75 score: 249.3
IPR000783	RNA polymerase, subunit H/Rpb5 C-terminal	PFAM	PF01191	RNA_pol_Rpb5_C	coord: 162..234 e-value: 3.3E-28 score: 97.2
IPR000783	RNA polymerase, subunit H/Rpb5 C-terminal	GENE3D	3.90.940.20		coord: 163..235 e-value: 4.9E-28 score: 96.1
IPR000783	RNA polymerase, subunit H/Rpb5 C-terminal	PRODOM	PD005155		coord: 169..234 e-value: 1.0E-20 score: 245.0
IPR000783	RNA polymerase, subunit H/Rpb5 C-terminal	SUPERFAMILY	55287	RPB5-like RNA polymerase subunit	coord: 160..235
None	No IPR available	PANTHER	PTHR10535:SF2	DNA-DIRECTED RNA POLYMERASE V SUBUNIT 5A-RELATED	coord: 33..235
None	No IPR available	PANTHER	PTHR10535	DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC1	coord: 33..235

Sequences

The following sequences are available for this feature:

contig sequence

contig sequence

>g.arboreum_cottongen_reftransV1_0021466 ID=g.arboreum_cottongen_reftransV1_0021466; Name=g.arboreum_cottongen_reftransV1_0021466; organism=Gossypium arboreum; type=contig; length=960bp
GCCAACAGACATTATAGATTTCAAAGTAAAATTAAATAAGAATCCACTCA
ATCAGTGTTCATAAAACAGCAAACAAAGGTCGGAAGCCCCATAGAAAGGT
TTGGGAAACCACTTCTGAAAGAAAACTACAAACGCAATTTTCCTACAGGA
AGAAACATAAAGAAAAGCGACAGCATTGATTTGTTTCATCACCAGACGCA
TCGATAAGTAACATGTGACTCAGTGATTTCACCCCCATATGTAACTTTTA
TCACCTGACCCTTTTCAAAACCGTAGTATCTTGCAATGGCATCTTTTTTT
AACAGTCGAGGGAGCTGTTTTTCTTCTATGCTGTACTTCTGCAATAGTCT
TTGTTTCTCATGTTCTGTTAGTACCCGGTGCTGGGGCTTCAGCACATGCT
TTGTGATATTAACAAGTAGGTCAGTAATCTGGAATATCTCCACCTTAAAT
GAGAAAAGGTCTAAAGCTTTCAAAGCTTGGTTTGTTATGTGGTTTTGCAC
GATTAATATCAACCCGGTCAAAGTTTCTTTGCTAGTAATTAGACCAGCAA
TGAGCCGAATCCCACTGACTTTAACTACACCAGGCCCATAGAAAACTACC
AGCATCCGCTTGGAAGAGTCAGTTTTATGAGTAACAGAGAGTTTGAGACG
ATCAAAATCAGGGCTTTGGCCATGAATGGCACGAAATTCATGGAGAGAGA
GGTCGATTTCAGTGTTGGGTACGGCATAGCCTCTGTCCCTAAGCATCTCC
AGCACAGTTCTCCGGGACAGGAAGTATCGATGACTCTCGGTGCTACCATC
GTCCACCAACCCACTCAAGCACTTCCCAAGAGCTTCCCCGTTTGACCCAT
CTCCTTCCAATCCAATCCCTTCCATTTTCACTTTTACTTCAACCAGTCTA
CGAGTTCAGTATTTACACGACTTAACTACGCTTCCGCTTCGTTTTCCTCG
ACTGTCTCAG

Annotated Terms

The following terms have been associated with this contig:

Vocabulary: **INTERPRO**
Term	Definition
IPR005571	RNA_pol_Rpb5_N
IPR014381	Arch_Rpo5/euc_Rpb5
IPR000783	RNA_pol_subH/Rpb5_C

Vocabulary: **Molecular Function**
Term	Definition
GO:0003677	DNA binding
GO:0003899	DNA-directed 5'-3' RNA polymerase activity

Vocabulary: **Cellular Component**
Term	Definition
GO:0005634	nucleus

Vocabulary: **Biological Process**
Term	Definition
GO:0006351	DNA-templated transcription

Search form

g.arboreum_cottongen_reftransV1_0021466, g.arboreum_cottongen_reftransV1_0021466 (contig) Gossypium arboreum

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