g.arboreum_cottongen_reftransV1_0008718, g.arboreum_cottongen_reftransV1_0008718 (contig) Gossypium arboreum

Overview
Nameg.arboreum_cottongen_reftransV1_0008718
Unique Nameg.arboreum_cottongen_reftransV1_0008718
Typecontig
OrganismGossypium arboreum (Tree cotton)
Sequence length1170
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
Chr3chromosomeg.arboreum_cottongen_reftransV1_0008718:1..1170 .
Chr3:281277..283729 -
Homology
BLAST of g.arboreum_cottongen_reftransV1_0008718 vs. ExPASy TrEMBL
Match: V4LVI0_EUTSA (Uncharacterized protein OS=Eutrema salsugineum GN=EUTSA_v10025833mg PE=4 SV=1)

HSP 1 Score: 348.591 bits (893), Expect = 1.067e-114
Identity = 162/205 (79.02%), Postives = 181/205 (88.29%), Query Frame = 3
Query:  258 LPKIDKSGRFCSPRAARELALLIVYASCLQGSDPIRLFEKRINAAREPGYEFDKASLLQYNHMSFGGPPVTTHSVEEADELLRSDEQDSAIEAEVLSAPPKLVYSKLLLSFTRKLLVAIVDKWDNHVLAIDKVVPSNWKNEPAGRILELSILHLAMSEITVLGTRHPIVINEAVDLAKRFCDGAAPRIINGCLRTFVKDLAGTST 872
            +PKIDKSGR  SPRAARELAL+I+YA+CL+GSDPIRLFEKRINA REPGYEFDK SLL+YNHMSFGGPPV T + EE DEL+R DE +S IEAEVLSAPPKLVYSKL+L F +KLL A+VDKWD+HV+ I+K+ P +WK+ PAGRILE SILHLAMSE+ VL TRHPIVINEAVDLAKRFCDGAAPRIINGCLRTFVKD A T T
Sbjct:   83 MPKIDKSGRLSSPRAARELALVILYAACLEGSDPIRLFEKRINARREPGYEFDKTSLLEYNHMSFGGPPVKTETSEEEDELVRRDENESKIEAEVLSAPPKLVYSKLVLRFAKKLLAAVVDKWDSHVVIIEKISPPDWKSAPAGRILEFSILHLAMSEVAVLETRHPIVINEAVDLAKRFCDGAAPRIINGCLRTFVKDRAATPT 287          
BLAST of g.arboreum_cottongen_reftransV1_0008718 vs. ExPASy TrEMBL
Match: A0A0A0KWZ5_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_4G268020 PE=4 SV=1)

HSP 1 Score: 351.288 bits (900), Expect = 1.124e-114
Identity = 161/202 (79.70%), Postives = 184/202 (91.09%), Query Frame = 3
Query:  252 EMLPKIDKSGRFCSPRAARELALLIVYASCLQGSDPIRLFEKRINAAREPGYEFDKASLLQYNHMSFGGPPVTTHSVEEADELLRSDEQDSAIEAEVLSAPPKLVYSKLLLSFTRKLLVAIVDKWDNHVLAIDKVVPSNWKNEPAGRILELSILHLAMSEITVLGTRHPIVINEAVDLAKRFCDGAAPRIINGCLRTFVKDL 857
            EM+PK+DKSG+FCSPRAARELAL IVYA+CL+GSDP+RLFEKR+NA RE GYEFDK SL++YNHMSFGGPPVT  ++EEADELLR DE+DS IEAE+L+APPK+VYSKL+L FTRKLLVA+ D WD+  L I+KV+P  WKN+PAGRILEL ILHLAMSEITV+GTRH IVINEAVDLAKRFCDGAAPRIINGCLRTFVKD+
Sbjct:  166 EMIPKVDKSGKFCSPRAARELALSIVYAACLEGSDPVRLFEKRLNARRESGYEFDKTSLMEYNHMSFGGPPVTVETIEEADELLRKDERDSTIEAEILAAPPKIVYSKLILRFTRKLLVAVGDGWDSRALKIEKVIPPTWKNKPAGRILELCILHLAMSEITVIGTRHQIVINEAVDLAKRFCDGAAPRIINGCLRTFVKDI 367          
BLAST of g.arboreum_cottongen_reftransV1_0008718 vs. ExPASy TrEMBL
Match: A0A078HYI4_BRANA (BnaA03g47980D protein OS=Brassica napus GN=BnaA03g47980D PE=4 SV=1)

HSP 1 Score: 344.739 bits (883), Expect = 3.294e-113
Identity = 162/215 (75.35%), Postives = 183/215 (85.12%), Query Frame = 3
Query:  258 LPKIDKSGRFCSPRAARELALLIVYASCLQGSDPIRLFEKRINAAREPGYEFDKASLLQYNHMSFGGPPVTTHSVEEADELLRSDEQDSAIEAEVLSAPPKLVYSKLLLSFTRKLLVAIVDKWDNHVLAIDKVVPSNWKNEPAGRILELSILHLAMSEITVLGTRHPIVINEAVDLAKRFCDGAAPRIINGCLRTFVKDLAGTSTAQTSNSKLEV 902
            +PK+DKSGR  SPRAARELAL+I+YA+CL+GSDPIRLFEKRINA REPGYEFDKA LL+YNHMSFGGPPV T + EE DEL+R DE +S IEAEVLSAPPKLVYSKL+L F +KLL A+ DKWD HV+ IDK+ P +WK+ PAGRILE SILHLAMSEI V+ TRHPIVINEAVDLAKRFCDG+APRIINGCLRTFVKD A T  A  S  ++ V
Sbjct:   78 MPKVDKSGRLSSPRAARELALVILYAACLEGSDPIRLFEKRINARREPGYEFDKACLLKYNHMSFGGPPVKTETSEEEDELVRHDENESKIEAEVLSAPPKLVYSKLVLRFAKKLLAAVADKWDTHVVIIDKISPPDWKSAPAGRILEFSILHLAMSEIAVIETRHPIVINEAVDLAKRFCDGSAPRIINGCLRTFVKDRAPTPQALESKQEVSV 292          
BLAST of g.arboreum_cottongen_reftransV1_0008718 vs. ExPASy TrEMBL
Match: A0A0D3A6K9_BRAOL (Uncharacterized protein OS=Brassica oleracea var. oleracea PE=4 SV=1)

HSP 1 Score: 342.043 bits (876), Expect = 3.122e-112
Identity = 163/217 (75.12%), Postives = 184/217 (84.79%), Query Frame = 3
Query:  258 LPKIDKSGRFCSPRAARELALLIVYASCLQGSDPIRLFEKRINAAREPGYEFDKASLLQYNHMSFGGPPVTTHSVEEADELLRSDEQDSAIEAEVLSAPPKLVYSKLLLSFTRKLLVAIVDKWDNHVLAIDKVVPSNWKNEPAGRILELSILHLAMSEITVLGTRHPIVINEAVDLAKRFCDGAAPRIINGCLRTFVKD--LAGTSTAQTSNSKLEV 902
            +PKIDKSGR  SPRAARELAL+ +YA+CL+GSDPIRLFEKRINA REPGYEFDK+SLL+YNHMSFGGPPV T + EE DEL+R DE +S IEAEVLSAPPKLVYSKL+L F +KLL A+ DKWD+HV+ I+K+ P +WK+ PAGRILE SILHLAMSE+ VL TRHPIVINEAVDLAKRFCDG+APRIINGCLRTFVKD   A T T Q    K EV
Sbjct:   78 MPKIDKSGRLSSPRAARELALVTLYAACLEGSDPIRLFEKRINARREPGYEFDKSSLLEYNHMSFGGPPVKTETSEEEDELVRHDENESKIEAEVLSAPPKLVYSKLVLRFAKKLLAAVADKWDSHVVIIEKISPPDWKSAPAGRILEFSILHLAMSEMAVLETRHPIVINEAVDLAKRFCDGSAPRIINGCLRTFVKDRSAAATPTPQALKLKQEV 294          
BLAST of g.arboreum_cottongen_reftransV1_0008718 vs. ExPASy TrEMBL
Match: A0A078E4G9_BRANA (BnaC01g18410D protein OS=Brassica napus GN=BnaC01g18410D PE=4 SV=1)

HSP 1 Score: 342.043 bits (876), Expect = 3.836e-112
Identity = 163/217 (75.12%), Postives = 183/217 (84.33%), Query Frame = 3
Query:  258 LPKIDKSGRFCSPRAARELALLIVYASCLQGSDPIRLFEKRINAAREPGYEFDKASLLQYNHMSFGGPPVTTHSVEEADELLRSDEQDSAIEAEVLSAPPKLVYSKLLLSFTRKLLVAIVDKWDNHVLAIDKVVPSNWKNEPAGRILELSILHLAMSEITVLGTRHPIVINEAVDLAKRFCDGAAPRIINGCLRTFVKD--LAGTSTAQTSNSKLEV 902
            +PKIDKSGR  SPRAARELAL+ +YA+CL+GSDPIRLFEKRINA REPGYEFDK SLL+YNHMSFGGPPV T + EE DEL+R DE +S IEAEVLSAPPKLVYSKL+L F +KLL A+ DKWD+HV+ I+K+ P +WK+ PAGRILE SILHLAMSE+ VL TRHPIVINEAVDLAKRFCDG+APRIINGCLRTFVKD   A T T Q    K EV
Sbjct:   78 MPKIDKSGRLSSPRAARELALVTLYAACLEGSDPIRLFEKRINARREPGYEFDKTSLLEYNHMSFGGPPVKTETSEEEDELVRHDENESKIEAEVLSAPPKLVYSKLVLRFAKKLLAAVADKWDSHVVIIEKISPPDWKSAPAGRILEFSILHLAMSEMAVLETRHPIVINEAVDLAKRFCDGSAPRIINGCLRTFVKDRSAAATPTPQALKLKQEV 294          
BLAST of g.arboreum_cottongen_reftransV1_0008718 vs. ExPASy Swiss-Prot
Match: NUSB_PEPD6 (N utilization substance protein B homolog OS=Peptoclostridium difficile (strain 630) GN=nusB PE=3 SV=1)

HSP 1 Score: 56.225 bits (134), Expect = 3.620e-8
Identity = 29/74 (39.19%), Postives = 48/74 (64.86%), Query Frame = 3
Query:  645 IDKVVPSNWKNEPAGRI--LELSILHLAMSEITVLGTRHPIVINEAVDLAKRFCDGAAPRIINGCLRTFVKDLA 860
            ID+++  + KN    R+  +++SIL L++ EI  L T + + INEAV+LAK +CD  +P+ ING L + V ++ 
Sbjct:   95 IDELINKHAKNWTVDRMPKVDVSILRLSVCEILYLDTPNKVSINEAVELAKIYCDDKSPKFINGILGSVVDEIG 168          
The following BLAST results are available for this feature:
BLAST of g.arboreum_cottongen_reftransV1_0008718 vs. ExPASy TrEMBL
Analysis Date: 2016-11-15 (Homology Analysis for Gossypium arboreum CottonGen RefTrans V1 vs TrEMBL)
Total hits: 25
Match NameE-valueIdentityDescription
V4LVI0_EUTSA1.067e-11479.02Uncharacterized protein OS=Eutrema salsugineum GN=... [more]
A0A0A0KWZ5_CUCSA1.124e-11479.70Uncharacterized protein OS=Cucumis sativus GN=Csa_... [more]
A0A078HYI4_BRANA3.294e-11375.35BnaA03g47980D protein OS=Brassica napus GN=BnaA03g... [more]
A0A0D3A6K9_BRAOL3.122e-11275.12Uncharacterized protein OS=Brassica oleracea var. ... [more]
A0A078E4G9_BRANA3.836e-11275.12BnaC01g18410D protein OS=Brassica napus GN=BnaC01g... [more]

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BLAST of g.arboreum_cottongen_reftransV1_0008718 vs. ExPASy Swiss-Prot
Analysis Date: 2016-11-15 (Homology Analysis for Gossypium arboreum CottonGen RefTrans V1 vs SwissProt)
Total hits: 1
Match NameE-valueIdentityDescription
NUSB_PEPD63.620e-839.19N utilization substance protein B homolog OS=Pepto... [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
IPR006027NusB/RsmB/TIM44PFAMPF01029NusBcoord: 176..269
e-value: 5.1E-12
score: 46.1
IPR006027NusB/RsmB/TIM44GENE3D1.10.940.10coord: 81..124
e-value: 1.2E-23
score: 82.9
coord: 182..271
e-value: 1.2E-23
score: 82.9
IPR006027NusB/RsmB/TIM44SUPERFAMILY48013NusB-likecoord: 82..117
coord: 175..271
IPR011605NusB antitermination factorPANTHERPTHR11078N UTILIZATION SUBSTANCE PROTEIN B-RELATEDcoord: 14..285

Sequences
The following sequences are available for this feature:

contig sequence

>g.arboreum_cottongen_reftransV1_0008718 ID=g.arboreum_cottongen_reftransV1_0008718; Name=g.arboreum_cottongen_reftransV1_0008718; organism=Gossypium arboreum; type=contig; length=1170bp
GAAGTAGAAGATAGAAGAGTGAGAGCAGCCAGCAAAAGAGAAACATGGAG
GGAATACGGTGTAGCAGCGTTTTAAGCTGTTACTACTCTTCTAAAACCCA
TTTCAAATTACGCCATCAAGCGTTGGAACATTGCTTTTTGAGCTTGCCGC
CACCGCCGCCTCGGCACCCTGCAAGCCGCCCCAAAGTTCGAATTTCACTC
CCTTCCATGGCGCTTCAGGTCCAAGACCAACAATCTTTTCATAAATCCAA
AGAAATGCTCCCAAAAATAGACAAAAGTGGCCGCTTTTGCAGTCCAAGAG
CCGCCCGGGAGCTTGCTTTATTAATAGTTTATGCCTCGTGTTTGCAAGGG
TCGGACCCTATTAGGCTGTTTGAGAAGCGAATTAATGCAGCCAGAGAACC
TGGCTATGAATTTGACAAGGCTTCGTTATTGCAATACAACCACATGAGCT
TCGGAGGGCCTCCGGTCACTACACATTCTGTTGAAGAAGCAGATGAGCTT
TTACGCAGCGATGAGCAGGATTCCGCCATTGAGGCAGAAGTTCTTTCGGC
GCCTCCAAAGTTGGTGTACAGCAAGCTTCTTTTGAGTTTCACAAGGAAGC
TTTTGGTTGCAATTGTGGACAAATGGGACAATCATGTTCTTGCTATTGAT
AAAGTTGTGCCATCAAATTGGAAGAATGAGCCAGCTGGTAGGATTTTGGA
GCTTAGTATTCTTCACTTAGCAATGTCAGAGATAACCGTTCTCGGAACCC
GGCACCCAATTGTCATTAACGAGGCTGTTGATCTTGCGAAACGATTCTGT
GATGGGGCGGCTCCACGAATAATCAACGGGTGCCTACGGACTTTTGTGAA
GGATCTTGCCGGGACCAGCACGGCTCAGACCTCAAACTCAAAACTGGAAG
TGCCTCTTCAAGTATGAAAGTTAGTTCATTTAAGGCTATTTCTTGCTTTT
TATAGATCTCTGGGTTGCCACATCACAATGGTTTAGTCTCTGAGTAATGT
AATCTTCAGCTCATTTGAGTGCTTATAAAGGACTGAGTTATAGCATAGAA
AGATGCAGAGAATTAAAAAAACAGATAAATTGTGGCAACGATCAAAATAT
TTGACAGCTGAAGAATTTTGTATATGATTATGCTGTAGTTAGAATCTTTA
CATGTAAAACATAAAATGAT
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Annotated Terms
The following terms have been associated with this contig:
Vocabulary: INTERPRO
TermDefinition
IPR006027NusB_RsmB_TIM44
IPR011605NusB_fam
Vocabulary: Molecular Function
TermDefinition
GO:0003723RNA binding
Vocabulary: Biological Process
TermDefinition
GO:0006355regulation of DNA-templated transcription
GO:0006353DNA-templated transcription termination