g.arboreum_cottongen_reftransV1_0015233, g.arboreum_cottongen_reftransV1_0015233 (contig) Gossypium arboreum

Overview
Nameg.arboreum_cottongen_reftransV1_0015233
Unique Nameg.arboreum_cottongen_reftransV1_0015233
Typecontig
OrganismGossypium arboreum (Tree cotton)
Sequence length627
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
Chr6chromosomeg.arboreum_cottongen_reftransV1_0015233:1..627 .
Chr6:88508834..88509460 -
Homology
BLAST of g.arboreum_cottongen_reftransV1_0015233 vs. ExPASy TrEMBL
Match: G7KST6_MEDTR (Calvin cycle protein CP12-1 OS=Medicago truncatula GN=MTR_7g109520 PE=4 SV=1)

HSP 1 Score: 144.05 bits (362), Expect = 6.176e-40
Identity = 77/129 (59.69%), Postives = 95/129 (73.64%), Query Frame = 2
Query:  122 MATLSSVN-LVTPRIIANGPDVP-TVKV----PCLNRPWKRVSPMKLRV-GPVRAAPDGISEKVEKSIKEAQEMCSDDPASGECVAAWDEVEELSAAASHARDKKKDDDPLENYCKDNPETDECRTYDN 487
            MAT+  ++ L  P+++ N    P T+K+    P   R W      ++ V  PVRAAP+ IS+KVE+SIK AQE C+DDP SGECVAAWDEVEELSAAASHARD+KKD DPLE+YCKDNPETDEC+T+D 
Sbjct:    1 MATIGGLSSLSNPKLLFNSSGFPQTIKISPATPLQTR-WGVAGSGRMTVVRPVRAAPEQISKKVEESIKSAQETCADDPVSGECVAAWDEVEELSAAASHARDRKKDSDPLEDYCKDNPETDECKTFDT 128          
BLAST of g.arboreum_cottongen_reftransV1_0015233 vs. ExPASy TrEMBL
Match: R0FT88_9BRAS (Uncharacterized protein OS=Capsella rubella GN=CARUB_v10019023mg PE=4 SV=1)

HSP 1 Score: 143.665 bits (361), Expect = 1.069e-39
Identity = 80/131 (61.07%), Postives = 95/131 (72.52%), Query Frame = 2
Query:  122 MATL-SSVNLVTPRIIANGPD--VPTVKVPCLNRPWK---RVSPMKLRVGPVRAAPDG-ISEKVEKSIKEAQEMCSDDPASGECVAAWDEVEELSAAASHARDKKKDD--DPLENYCKDNPETDECRTYDN 487
            MAT+ +S+N+ T R++    +  V       LN PW    R +   ++  PV+AAP+G IS+ VEKSIKEAQE C+ DP SGECVAAWDEVEELSAAASHARDKKK D  DPLE YCKDNPET+ECRTYDN
Sbjct:    1 MATIATSLNIATQRVVFTSENRSVHLTGPVRLNNPWNLGSRTTSRMVKFSPVKAAPEGGISDVVEKSIKEAQETCAGDPESGECVAAWDEVEELSAAASHARDKKKADGSDPLEEYCKDNPETNECRTYDN 131          
BLAST of g.arboreum_cottongen_reftransV1_0015233 vs. ExPASy TrEMBL
Match: I3S361_MEDTR (Uncharacterized protein OS=Medicago truncatula PE=2 SV=1)

HSP 1 Score: 143.28 bits (360), Expect = 1.523e-39
Identity = 76/130 (58.46%), Postives = 93/130 (71.54%), Query Frame = 2
Query:  125 ATLSSVNLVTPRIIANGPD-------VPTVKVPCLNRPWKRV--SPMKLRVGPVRAAPDGISEKVEKSIKEAQEMCSDDPASGECVAAWDEVEELSAAASHARDKKKDDDPLENYCKDNPETDECRTYDN 487
            AT++ V+L +PR+I  GP+       + +  V  LN+ W     S   + + PV+A+PD I+ KVE+SIK A+E C+ D  SGECVAAWDEVEELSAAASHARDKKK  DPLE YCKDNPETDECRTYDN
Sbjct:    3 ATMAGVSLSSPRVIFKGPESLQKSQAIRSGPVFMLNQRWTGAVSSGRMVSIRPVQASPD-ITGKVEESIKSAEETCAGDATSGECVAAWDEVEELSAAASHARDKKKTSDPLEEYCKDNPETDECRTYDN 131          
BLAST of g.arboreum_cottongen_reftransV1_0015233 vs. ExPASy TrEMBL
Match: M1AB57_SOLTU (Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400007286 PE=4 SV=1)

HSP 1 Score: 142.895 bits (359), Expect = 1.706e-39
Identity = 72/126 (57.14%), Postives = 93/126 (73.81%), Query Frame = 2
Query:  122 MATLSSVNLVTPRIIANGPDVPTVKVPCLNRPWKR---VSPMKLRVGPVRAAPDG-ISEKVEKSIKEAQEMCSDDPASGECVAAWDEVEELSAAASHARDKKKDDDPLENYCKDNPETDECRTYDN 487
            MA+++ V++ TPRI ++ P +  +K P LN PWK+    S  ++ V   R  PD  +S+ V +S+KEA+E C++DP SGEC AAWD VEE SAAASHARD+KK+ D LENYCKDNPETDECRTYDN
Sbjct:    1 MASIAGVSITTPRISSDSPKIQPLKFPTLNSPWKKSGQFSYGRMYVVVPRVVPDKKLSDLVAESVKEAEEACAEDPVSGECKAAWDVVEETSAAASHARDRKKESDVLENYCKDNPETDECRTYDN 126          
BLAST of g.arboreum_cottongen_reftransV1_0015233 vs. ExPASy TrEMBL
Match: V7D0Z7_PHAVU (Uncharacterized protein OS=Phaseolus vulgaris GN=PHAVU_001G212900g PE=4 SV=1)

HSP 1 Score: 142.895 bits (359), Expect = 1.902e-39
Identity = 78/132 (59.09%), Postives = 92/132 (69.70%), Query Frame = 2
Query:  122 MATLSSVNLVTPRIIANGPDVP------TVKVPCLN--RPWKRVSPMKLRVGPVRAAPDGISEKVEKSIKEAQEMCSDDPASGECVAAWDEVEELSAAASHARDKK--KDDDPLENYCKDNPETDECRTYDN 487
            MAT++ V+L +PR+  N    P         +P     RP         R+ PVRAAPD ISEKVE+SIK+AQE C+ DP SGECVAAWDEVEELSAAASHARDK+  KD DPLENYCKDNPET EC+T+D+
Sbjct:    1 MATMTGVSLSSPRVWFNASGSPQNAHAINFALPLRQAMRPGGIQMGRVTRIRPVRAAPDKISEKVEESIKQAQEACAGDPTSGECVAAWDEVEELSAAASHARDKQKEKDSDPLENYCKDNPETIECKTFDD 132          
BLAST of g.arboreum_cottongen_reftransV1_0015233 vs. ExPASy Swiss-Prot
Match: CP122_ARATH (Calvin cycle protein CP12-2, chloroplastic OS=Arabidopsis thaliana GN=CP12-2 PE=1 SV=1)

HSP 1 Score: 140.969 bits (354), Expect = 1.542e-40
Identity = 78/131 (59.54%), Postives = 96/131 (73.28%), Query Frame = 2
Query:  122 MATLSS-VNLVTPRIIANGPDVPT-VKVPC-LNRPWK---RVSPMKLRVGPVRAAPDG-ISEKVEKSIKEAQEMCSDDPASGECVAAWDEVEELSAAASHARDKKKDD--DPLENYCKDNPETDECRTYDN 487
            MAT+++ +N+ T R+     + P  +  P  LN  W    R +   +++ P++AAP+G IS+ VEKSIKEAQE C+ DP SGECVAAWDEVEELSAAASHARDKKK D  DPLE YCKDNPET+ECRTYDN
Sbjct:    1 MATIATGLNIATQRVFVTSENRPVCLAGPVHLNNSWNLGSRTTNRMMKLQPIKAAPEGGISDVVEKSIKEAQETCAGDPVSGECVAAWDEVEELSAAASHARDKKKADGSDPLEEYCKDNPETNECRTYDN 131          
BLAST of g.arboreum_cottongen_reftransV1_0015233 vs. ExPASy Swiss-Prot
Match: CP121_ARATH (Calvin cycle protein CP12-1, chloroplastic OS=Arabidopsis thaliana GN=CP12-1 PE=1 SV=1)

HSP 1 Score: 133.65 bits (335), Expect = 8.809e-38
Identity = 71/97 (73.20%), Postives = 78/97 (80.41%), Query Frame = 2
Query:  206 LNRPWKRVSPMKLRVGPVRAAPDG-ISEKVEKSIKEAQEMCSDDPASGECVAAWDEVEELSAAASHARDKKK--DDDPLENYCKDNPETDECRTYDN 487
            LN PWK  S  ++ V  V+A  +G ISEKVEKSI+EA+E C+DDP SGECVAAWDEVEELSAAASHARDKKK    DPLE YC DNPETDECRTYDN
Sbjct:   30 LNYPWKFGSMKRMVV--VKATSEGEISEKVEKSIQEAKETCADDPVSGECVAAWDEVEELSAAASHARDKKKAGGSDPLEEYCNDNPETDECRTYDN 124          
BLAST of g.arboreum_cottongen_reftransV1_0015233 vs. ExPASy Swiss-Prot
Match: CP123_ARATH (Calvin cycle protein CP12-3, chloroplastic OS=Arabidopsis thaliana GN=CP12-3 PE=1 SV=1)

HSP 1 Score: 77.7962 bits (190), Expect = 1.266e-16
Identity = 37/74 (50.00%), Postives = 53/74 (71.62%), Query Frame = 2
Query:  272 DGISEKVEKSIKEAQEMCSDDPASGECVAAWDEVEELSAAASHARDKKK--DDDPLENYCKDNPETDECRTYDN 487
            + +SE +E+ +KEA E+C  +  S EC  AWDEVEE+S A +  R K K  + DPLE++C++NPETDECR Y++
Sbjct:   61 EKLSEMIEEKVKEATEVCEAEEMSEECRVAWDEVEEVSQARADLRIKLKLLNQDPLESFCQENPETDECRIYED 134          
BLAST of g.arboreum_cottongen_reftransV1_0015233 vs. ExPASy Swiss-Prot
Match: CP12_CHLRE (Calvin cycle protein CP12, chloroplastic OS=Chlamydomonas reinhardtii GN=CP12 PE=1 SV=2)

HSP 1 Score: 72.4034 bits (176), Expect = 5.918e-15
Identity = 36/74 (48.65%), Postives = 51/74 (68.92%), Query Frame = 2
Query:  278 ISEKVEKSIKEAQEMCSDDPASGECVAAWDEVEELSAAASHARDKKKDD----DPLENYCKDNPETDECRTYDN 487
            +++KV+ ++KEA++ C+    S +C  AWD VEELSAA SH +D  K D    DPLE +CKD P+ DECR Y++
Sbjct:   35 LNKKVQDAVKEAEDACAKGT-SADCAVAWDTVEELSAAVSHKKDAVKADVTLTDPLEAFCKDAPDADECRVYED 107          
The following BLAST results are available for this feature:
BLAST of g.arboreum_cottongen_reftransV1_0015233 vs. ExPASy TrEMBL
Analysis Date: 2016-11-15 (Homology Analysis for Gossypium arboreum CottonGen RefTrans V1 vs TrEMBL)
Total hits: 25
Match NameE-valueIdentityDescription
G7KST6_MEDTR6.176e-4059.69Calvin cycle protein CP12-1 OS=Medicago truncatula... [more]
R0FT88_9BRAS1.069e-3961.07Uncharacterized protein OS=Capsella rubella GN=CAR... [more]
I3S361_MEDTR1.523e-3958.46Uncharacterized protein OS=Medicago truncatula PE=... [more]
M1AB57_SOLTU1.706e-3957.14Uncharacterized protein OS=Solanum tuberosum GN=PG... [more]
V7D0Z7_PHAVU1.902e-3959.09Uncharacterized protein OS=Phaseolus vulgaris GN=P... [more]

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BLAST of g.arboreum_cottongen_reftransV1_0015233 vs. ExPASy Swiss-Prot
Analysis Date: 2016-11-15 (Homology Analysis for Gossypium arboreum CottonGen RefTrans V1 vs SwissProt)
Total hits: 4
Match NameE-valueIdentityDescription
CP122_ARATH1.542e-4059.54Calvin cycle protein CP12-2, chloroplastic OS=Arab... [more]
CP121_ARATH8.809e-3873.20Calvin cycle protein CP12-1, chloroplastic OS=Arab... [more]
CP123_ARATH1.266e-1650.00Calvin cycle protein CP12-3, chloroplastic OS=Arab... [more]
CP12_CHLRE5.918e-1548.65Calvin cycle protein CP12, chloroplastic OS=Chlamy... [more]
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InterPro
Analysis Name: InterProScan analysis for Gossypium arboreum CottonGen RefTrans V1
Date Performed: 2016-11-14
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR003823Domain of unknown function CP12SMARTSM01093CP12_2coord: 53..122
e-value: 1.6E-31
score: 120.7
IPR003823Domain of unknown function CP12PFAMPF02672CP12coord: 53..121
e-value: 4.0E-29
score: 101.1
NoneNo IPR availablePANTHERPTHR33921:SF2CALVIN CYCLE PROTEIN CP12-1, CHLOROPLASTIC-RELATEDcoord: 2..122
NoneNo IPR availablePANTHERPTHR33921FAMILY NOT NAMEDcoord: 2..122

Sequences
The following sequences are available for this feature:

contig sequence

>g.arboreum_cottongen_reftransV1_0015233 ID=g.arboreum_cottongen_reftransV1_0015233; Name=g.arboreum_cottongen_reftransV1_0015233; organism=Gossypium arboreum; type=contig; length=627bp
AAAATGATAAGAAATTTGTGTTCATCAACCATTAGAAAAACCCTTATATT
TTTCATCCCCGGTCTTAGCATAACCATTACATCATTTCCAGTCATAATAT
CCAAACACAGTAACATTACCAATGGCAACCCTGTCTAGCGTGAACCTCGT
AACCCCAAGAATCATAGCCAATGGACCAGACGTCCCAACCGTCAAGGTCC
CATGCCTTAACCGGCCTTGGAAAAGGGTATCCCCAATGAAGCTGCGTGTC
GGGCCTGTTAGAGCTGCACCGGATGGAATATCGGAGAAGGTGGAGAAAAG
CATAAAAGAGGCACAAGAGATGTGTTCGGATGATCCGGCGAGTGGCGAGT
GTGTGGCGGCTTGGGACGAAGTGGAAGAGCTGAGTGCGGCGGCTAGCCAC
GCTAGGGACAAGAAGAAAGACGATGATCCTTTGGAGAATTACTGTAAAGA
CAACCCGGAGACGGATGAGTGTCGTACTTATGATAATTGAAAATGTTTGT
TTTTTCTAGTTTCTTAGATTATAGTTGGATGTTAATCTGAAATATATTTT
ATTGTTGGTTTATATAGTTTGTTATAATGATGTAATCCTAAAATTATACA
CTCCTAGAAAAGAAAATGATATCAATT
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Annotated Terms
The following terms have been associated with this contig:
Vocabulary: INTERPRO
TermDefinition
IPR003823DUF_CP12