g.arboreum_cottongen_reftransV1_0019940, g.arboreum_cottongen_reftransV1_0019940 (contig) Gossypium arboreum

Overview
Nameg.arboreum_cottongen_reftransV1_0019940
Unique Nameg.arboreum_cottongen_reftransV1_0019940
Typecontig
OrganismGossypium arboreum (Tree cotton)
Sequence length412
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
Chr4chromosomeg.arboreum_cottongen_reftransV1_0019940:13..412 .
Chr4:110398513..110398912 -		n/a
Homology
[Close]
BLAST of g.arboreum_cottongen_reftransV1_0019940 vs. ExPASy TrEMBL
Match: D7KP11_ARALL (Rubredoxin family protein OS=Arabidopsis lyrata subsp. lyrata GN=ARALYDRAFT_474725 PE=4 SV=1)

HSP 1 Score: 169.474 bits (428), Expect = 6.113e-50
Identity = 77/86 (89.53%), Postives = 82/86 (95.35%), Query Frame = -2 
Query:  154 FAVLNTGIYECRSCGFKYDEAVGDPSYPIPPGFQFDKLPDDWRCPTCGAAKSFFESKSVEIAGFAQNQQFGLGGNALTSGQKALLI 411
            FAVLNTGIYECRSCG+KYDE+ GDPSYPIPPGFQFDKLP+DWRCPTCGAA+SFFESK VEIAGFAQNQQ+GLGGNALTSGQK  LI
Sbjct:   92 FAVLNTGIYECRSCGYKYDESAGDPSYPIPPGFQFDKLPEDWRCPTCGAAQSFFESKMVEIAGFAQNQQYGLGGNALTSGQKTGLI 177
[Close]
BLAST of g.arboreum_cottongen_reftransV1_0019940 vs. ExPASy TrEMBL
Match: U5GAX7_POPTR (Rubredoxin family protein OS=Populus trichocarpa GN=POPTR_0005s05080g PE=4 SV=1)

HSP 1 Score: 169.088 bits (427), Expect = 8.277e-50
Identity = 78/86 (90.70%), Postives = 84/86 (97.67%), Query Frame = -2 
Query:  154 FAVLNTGIYECRSCGFKYDEAVGDPSYPIPPGFQFDKLPDDWRCPTCGAAKSFFESKSVEIAGFAQNQQFGLGGNALTSGQKALLI 411
            FAVLNTGIYECRSCG+KYDE+VGDPSYPIPPGFQFDKLP +WRCPTCGAA+SFF SKSVEIAGFAQNQQ+GLGGNALTSGQKA+LI
Sbjct:   98 FAVLNTGIYECRSCGYKYDESVGDPSYPIPPGFQFDKLPGEWRCPTCGAAQSFFVSKSVEIAGFAQNQQYGLGGNALTSGQKAVLI 183
[Close]
BLAST of g.arboreum_cottongen_reftransV1_0019940 vs. ExPASy TrEMBL
Match: Q9SLI4_ARATH (At1g54500/F20D21_31 OS=Arabidopsis thaliana GN=F20D21.31 PE=2 SV=1)

HSP 1 Score: 169.088 bits (427), Expect = 8.454e-50
Identity = 77/86 (89.53%), Postives = 82/86 (95.35%), Query Frame = -2 
Query:  154 FAVLNTGIYECRSCGFKYDEAVGDPSYPIPPGFQFDKLPDDWRCPTCGAAKSFFESKSVEIAGFAQNQQFGLGGNALTSGQKALLI 411
            FAVLNTGIYECRSCG+KYDE+ GDPSYPIPPGFQFDKLP+DWRCPTCGAA+SFFESK VEIAGFAQNQQ+GLGGNALTSGQK  LI
Sbjct:   92 FAVLNTGIYECRSCGYKYDESAGDPSYPIPPGFQFDKLPEDWRCPTCGAAQSFFESKMVEIAGFAQNQQYGLGGNALTSGQKTGLI 177
[Close]
BLAST of g.arboreum_cottongen_reftransV1_0019940 vs. ExPASy TrEMBL
Match: A0A068UK30_COFCA (Coffea canephora DH200=94 genomic scaffold, scaffold_34 OS=Coffea canephora GN=GSCOC_T00027567001 PE=4 SV=1)

HSP 1 Score: 169.474 bits (428), Expect = 9.372e-50
Identity = 76/86 (88.37%), Postives = 81/86 (94.19%), Query Frame = -2 
Query:  154 FAVLNTGIYECRSCGFKYDEAVGDPSYPIPPGFQFDKLPDDWRCPTCGAAKSFFESKSVEIAGFAQNQQFGLGGNALTSGQKALLI 411
            FAVLNTGI+ECRSCG++YDE VGDPSYPIPPG  FDKLPDDWRCPTCGAAK FFESKSVE+AGFAQNQQFG GGN+LTSGQKALLI
Sbjct:  108 FAVLNTGIHECRSCGYRYDETVGDPSYPIPPGLPFDKLPDDWRCPTCGAAKGFFESKSVEVAGFAQNQQFGFGGNSLTSGQKALLI 193
[Close]
BLAST of g.arboreum_cottongen_reftransV1_0019940 vs. ExPASy TrEMBL
Match: A0A078GEW5_BRANA (BnaA04g05960D protein OS=Brassica napus GN=BnaA04g05960D PE=4 SV=1)

HSP 1 Score: 168.703 bits (426), Expect = 9.780e-50
Identity = 76/86 (88.37%), Postives = 81/86 (94.19%), Query Frame = -2 
Query:  154 FAVLNTGIYECRSCGFKYDEAVGDPSYPIPPGFQFDKLPDDWRCPTCGAAKSFFESKSVEIAGFAQNQQFGLGGNALTSGQKALLI 411
            FAVLNTGIYECRSCG+KYDE+ GDPSYPIPPGFQFDKLP+DWRCPTCGAA+SFFESK VEIAGFAQNQQ+GLGGN LTSGQK  LI
Sbjct:   84 FAVLNTGIYECRSCGYKYDESAGDPSYPIPPGFQFDKLPEDWRCPTCGAAQSFFESKMVEIAGFAQNQQYGLGGNQLTSGQKTALI 169
[Close]
BLAST of g.arboreum_cottongen_reftransV1_0019940 vs. ExPASy Swiss-Prot
Match: RUBR2_PSEAE (Rubredoxin-2 OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228) GN=rubA2 PE=1 SV=1)

HSP 1 Score: 54.6842 bits (130), Expect = 1.532e-9
Identity = 26/54 (48.15%), Postives = 34/54 (62.96%), Query Frame = -2 
Query:  226 YECRSCGFKYDEAVGDPSYPIPPGFQFDKLPDDWRCPTCGAAKSFFESKSVEIA 387
            ++C  CGF YDEA+G P   IP G +++ +P DW CP CG  K  FE   +EIA
Sbjct:    4 WQCVVCGFIYDEALGLPEEGIPAGTRWEDIPADWVCPDCGVGKIDFE--MIEIA 55
[Close]
BLAST of g.arboreum_cottongen_reftransV1_0019940 vs. ExPASy Swiss-Prot
Match: RUBR1_ALCBS (Rubredoxin-1 OS=Alcanivorax borkumensis (strain ATCC 700651 / DSM 11573 / NCIMB 13689 / SK2) GN=rubA PE=3 SV=1)

HSP 1 Score: 54.6842 bits (130), Expect = 1.568e-9
Identity = 24/51 (47.06%), Postives = 30/51 (58.82%), Query Frame = -2 
Query:  235 YECRSCGFKYDEAVGDPSYPIPPGFQFDKLPDDWRCPTCGAAKSFFESKSV 387
            +EC  CGF YDEA G P   I PG  ++ +P+DW CP CG  K  FE   +
Sbjct:    4 WECVVCGFIYDEAEGLPDEGIEPGTAWNNVPEDWVCPDCGVGKDDFEMVEI 54
[Close]
BLAST of g.arboreum_cottongen_reftransV1_0019940 vs. ExPASy Swiss-Prot
Match: RUBR_CLOAB (Rubredoxin OS=Clostridium acetobutylicum (strain ATCC 824 / DSM 792 / JCM 1419 / LMG 5710 / VKM B-1787) GN=rd PE=1 SV=1)

HSP 1 Score: 54.6842 bits (130), Expect = 2.009e-9
Identity = 24/47 (51.06%), Postives = 28/47 (59.57%), Query Frame = -2 
Query:  247 YECRSCGFKYDEAVGDPSYPIPPGFQFDKLPDDWRCPTCGAAKSFFE 387
            Y C  CG+ YD A GDP   + PG  F+ +PDDW CP CG  K  FE
Sbjct:    4 YVCVVCGYIYDPAEGDPDNGVNPGTSFEDIPDDWVCPLCGVGKDQFE 50
[Close]
BLAST of g.arboreum_cottongen_reftransV1_0019940 vs. ExPASy Swiss-Prot
Match: RUBR_BUTME (Rubredoxin OS=Butyribacterium methylotrophicum PE=1 SV=1)

HSP 1 Score: 54.299 bits (129), Expect = 2.457e-9
Identity = 24/50 (48.00%), Postives = 30/50 (60.00%), Query Frame = -2 
Query:  238 YECRSCGFKYDEAVGDPSYPIPPGFQFDKLPDDWRCPTCGAAKSFFESKS 387
            Y C  CG+ YD AVGDP   + PG  F  LP+DW CP CG +K  F  ++
Sbjct:    4 YVCDICGYVYDPAVGDPDNGVAPGTAFADLPEDWVCPECGVSKDEFSPEA 53
[Close]
BLAST of g.arboreum_cottongen_reftransV1_0019940 vs. ExPASy Swiss-Prot
Match: RUBR2_METJA (Probable Rubredoxin-2 OS=Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) GN=MJ0740 PE=3 SV=1)

HSP 1 Score: 54.299 bits (129), Expect = 2.640e-9
Identity = 25/54 (46.30%), Postives = 34/54 (62.96%), Query Frame = -2 
Query:  244 VLNTGIYECRSCGFKYDEAVGDPSYPIPPGFQFDKLPDDWRCPTCGAAKSFFES 405
            ++    Y+C  CG+ YDE  G+PS  IPPG +F+ LPD +RCP CG  K+ F  
Sbjct:    1 MIEMARYQC-MCGWVYDEDKGEPSQNIPPGTKFEDLPDTFRCPQCGLGKNAFRK 53
The following BLAST results are available for this feature:
BLAST of g.arboreum_cottongen_reftransV1_0019940 vs. ExPASy TrEMBL
Analysis Date: 2016-11-15 (Homology Analysis for Gossypium arboreum CottonGen RefTrans V1 vs TrEMBL)
Total hits: 25
Match NameE-valueIdentityDescription
D7KP11_ARALL6.113e-5089.53Rubredoxin family protein OS=Arabidopsis lyrata su... [more]
U5GAX7_POPTR8.277e-5090.70Rubredoxin family protein OS=Populus trichocarpa G... [more]
Q9SLI4_ARATH8.454e-5089.53At1g54500/F20D21_31 OS=Arabidopsis thaliana GN=F20... [more]
A0A068UK30_COFCA9.372e-5088.37Coffea canephora DH200=94 genomic scaffold, scaffo... [more]
A0A078GEW5_BRANA9.780e-5088.37BnaA04g05960D protein OS=Brassica napus GN=BnaA04g... [more]

Pages

back to top
BLAST of g.arboreum_cottongen_reftransV1_0019940 vs. ExPASy Swiss-Prot
Analysis Date: 2016-11-15 (Homology Analysis for Gossypium arboreum CottonGen RefTrans V1 vs SwissProt)
Total hits: 25
Match NameE-valueIdentityDescription
RUBR2_PSEAE1.532e-948.15Rubredoxin-2 OS=Pseudomonas aeruginosa (strain ATC... [more]
RUBR1_ALCBS1.568e-947.06Rubredoxin-1 OS=Alcanivorax borkumensis (strain AT... [more]
RUBR_CLOAB2.009e-951.06Rubredoxin OS=Clostridium acetobutylicum (strain A... [more]
RUBR_BUTME2.457e-948.00Rubredoxin OS=Butyribacterium methylotrophicum PE=... [more]
RUBR2_METJA2.640e-946.30Probable Rubredoxin-2 OS=Methanocaldococcus jannas... [more]

Pages

back to top
InterPro
Analysis Name: InterProScan analysis for Gossypium arboreum CottonGen RefTrans V1
Date Performed: 2016-11-14
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR024935Rubredoxin domainPRINTSPR00163RUBREDOXINcoord: 5..21
score: 49.69
coord: 35..51
score: 58.82
IPR024935Rubredoxin domainPFAMPF00301Rubredoxincoord: 6..51
e-value: 1.1E-18
score: 66.8
IPR004039Rubredoxin-type foldGENE3D2.20.28.10coord: 2..55
e-value: 1.6E-23
score: 81.6
IPR018527Rubredoxin, iron-binding sitePROSITEPS00202RUBREDOXINcoord: 35..45
NoneNo IPR availablePHOBIUSNON_CYTOPLASMIC_DOMAINNon cytoplasmic domaincoord: 101..101
NoneNo IPR availablePHOBIUSTRANSMEMBRANETransmembrane regioncoord: 81..100
NoneNo IPR availablePHOBIUSCYTOPLASMIC_DOMAINCytoplasmic domaincoord: 1..80
NoneNo IPR availableSUPERFAMILY57802Rubredoxin-likecoord: 3..68
NoneNo IPR availableTMHMMTMhelixcoord: 81..100
IPR024934Rubredoxin-like domainPROSITEPS50903RUBREDOXIN_LIKEcoord: 3..54
score: 13.599

Sequences
The following sequences are available for this feature:

contig sequence

>g.arboreum_cottongen_reftransV1_0019940 ID=g.arboreum_cottongen_reftransV1_0019940; Name=g.arboreum_cottongen_reftransV1_0019940; organism=Gossypium arboreum; type=contig; length=412bp
GGCGGGGGGGCGTTTGATGGATTTTCCTATTTGCAGAAAAATATACCTTT
AAGGCAAAGAAAAATTACAGAAATTTATATTATGCACCCTACCTACCTAT
TGCAAAAAGTAGCCACTCAAGAAGAGCACAAAGAAGAAGAACAAACTGCC
ATAAATTAAGAGGGCTTTTTGACCAGAAGTAAGAGCATTGCCCCCTAAAC
CAAATTGCTGATTCTGAGCAAACCCAGCAATCTCAACACTCTTACTCTCA
AAGAAAGACTTTGCAGCCCCACAGGTAGGGCATCTCCAATCATCAGGCAG
CTTATCAAACTGAAACCCTGGTGGAATTGGATAGGAAGGATCACCCACTG
CTTCATCATACTTGAACCCACATGACCTGCACTCATATATCCCTGTGTTC
AACACTGCAAAC
back to top
Annotated Terms
The following terms have been associated with this contig:
Vocabulary: INTERPRO
TermDefinition
IPR024935Rubredoxin_dom
IPR004039Rubredoxin-type_fold
IPR018527Rubredoxin_Fe_BS
IPR024934Rubredoxin-like_dom
Vocabulary: Molecular Function
TermDefinition
GO:0005506iron ion binding
GO:0046872metal ion binding