g.barbadense_cottongen_reftransV1_0094771, g.barbadense_cottongen_reftransV1_0094771 (contig) Gossypium barbadense

Overview


Name	g.barbadense_cottongen_reftransV1_0094771
Unique Name	g.barbadense_cottongen_reftransV1_0094771
Type	contig
Organism	Gossypium barbadense (Sea Island cotton)
Sequence length	2284

Analyses

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


Analysis Name	Date Performed
Gossypium barbadense CottonGen RefTrans V1	2016-11-01
Homology Analysis for Gossypium barbadense CottonGen RefTrans V1 vs Swissprot	2016-11-01
InterProScan analysis for Gossypium barbadense CottonGen RefTrans V1	2016-11-02
Homology Analysis for Gossypium barbadense CottonGen RefTrans V1 vs TrEMBL	2016-11-02

Homology

[Close]

BLAST of g.barbadense_cottongen_reftransV1_0094771 vs. ExPASy Swiss-Prot
Match: RBMX2_MOUSE (RNA-binding motif protein, X-linked 2 OS=Mus musculus GN=Rbmx2 PE=1 SV=1)

HSP 1 Score: 63.1586 bits (152), Expect = 3.118e-9
Identity = 31/77 (40.26%), Postives = 48/77 (62.34%), Query Frame = -2

Query: 1111 VFVGNIPYDATEEQLIEICREVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAEN 1341
            +FVG +PY+ TE  +I +  + G +V+  LV D++TGK KG+ F  Y+D+ + + A  N  G +I GR +RVD   N
Sbjct:   38 IFVGGLPYELTEGDIICVFSQYGEIVNINLVRDKKTGKSKGFCFLCYEDQRSTVLAVDNFNGIKIKGRTIRVDHVSN 114

[Close]

BLAST of g.barbadense_cottongen_reftransV1_0094771 vs. ExPASy Swiss-Prot
Match: RBMX2_HUMAN (RNA-binding motif protein, X-linked 2 OS=Homo sapiens GN=RBMX2 PE=1 SV=2)

HSP 1 Score: 62.7734 bits (151), Expect = 3.222e-9
Identity = 30/77 (38.96%), Postives = 48/77 (62.34%), Query Frame = -2

Query: 1111 VFVGNIPYDATEEQLIEICREVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAEN 1341
            +F+G +PY+ TE  +I +  + G +V+  LV D++TGK KG+ F  Y+D+ + + A  N  G +I GR +RVD   N
Sbjct:   38 IFLGGLPYELTEGDIICVFSQYGEIVNINLVRDKKTGKSKGFCFLCYEDQRSTILAVDNFNGIKIKGRTIRVDHVSN 114

[Close]

BLAST of g.barbadense_cottongen_reftransV1_0094771 vs. ExPASy Swiss-Prot
Match: ROC5_NICSY (33 kDa ribonucleoprotein, chloroplastic OS=Nicotiana sylvestris PE=1 SV=1)

HSP 1 Score: 62.003 bits (149), Expect = 6.377e-9
Identity = 30/83 (36.14%), Postives = 46/83 (55.42%), Query Frame = -2

Query: 1093 VFVGNIPYDATEEQLIEICREVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAENDKGSDR 1341
            ++VGN+P+  T  QL EI  E G V +  +V DR T + +G+ F      E A  A R   G ++ GR ++V+F E  +G +R
Sbjct:  116 LYVGNLPFSMTSSQLSEIFAEAGTVANVEIVYDRVTDRSRGFAFVTMGSVEEAKEAIRLFDGSQVGGRTVKVNFPEVPRGGER 198

[Close]

BLAST of g.barbadense_cottongen_reftransV1_0094771 vs. ExPASy Swiss-Prot
Match: RBMX2_RAT (RNA-binding motif protein, X-linked 2 OS=Rattus norvegicus GN=Rbmx2 PE=2 SV=1)

HSP 1 Score: 62.003 bits (149), Expect = 6.498e-9
Identity = 30/77 (38.96%), Postives = 48/77 (62.34%), Query Frame = -2

Query: 1111 VFVGNIPYDATEEQLIEICREVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAEN 1341
            +F+G +PY+ TE  +I +  + G +V+  LV D++TGK KG+ F  Y+D+ + + A  N  G +I GR +RVD   N
Sbjct:   38 IFLGGLPYELTEGDIICVFSQYGEIVNINLVRDKKTGKSKGFCFLCYEDQRSTVLAVDNFNGIKIKGRTIRVDHVAN 114

[Close]

BLAST of g.barbadense_cottongen_reftransV1_0094771 vs. ExPASy Swiss-Prot
Match: RBG4_ARATH (Glycine-rich RNA-binding protein 4, mitochondrial OS=Arabidopsis thaliana GN=RBG4 PE=2 SV=1)

HSP 1 Score: 59.6918 bits (143), Expect = 7.115e-9
Identity = 27/84 (32.14%), Postives = 48/84 (57.14%), Query Frame = -2

Query: 1090 VFVGNIPYDATEEQLIEICREVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAENDKGSDRN 1341
            +FVG + +   +  L +     G V    ++ DRETG+ +G+GF  +  E++A +A + + G E+NGRQ+RV+ A     + R+
Sbjct:   37 LFVGGLSWGTDDSSLKQAFTSFGEVTEATVIADRETGRSRGFGFVSFSCEDSANNAIKEMDGKELNGRQIRVNLATERSSAPRS 120

[Close]

BLAST of g.barbadense_cottongen_reftransV1_0094771 vs. ExPASy TrEMBL
Match: A0A067JIV2_JATCU (Uncharacterized protein OS=Jatropha curcas GN=JCGZ_01932 PE=4 SV=1)

HSP 1 Score: 201.83 bits (512), Expect = 1.837e-52
Identity = 91/96 (94.79%), Postives = 93/96 (96.88%), Query Frame = -2

Query: 1081 FMASSQHRCVFVGNIPYDATEEQLIEICREVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAENDKGSDRNREQ 1368
              +SSQHRCVFVGNIPYDATEEQLIEICREVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAENDK +DRNREQ
Sbjct:    1 MASSSQHRCVFVGNIPYDATEEQLIEICREVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAENDKNADRNREQ 96

[Close]

BLAST of g.barbadense_cottongen_reftransV1_0094771 vs. ExPASy TrEMBL
Match: A0A0B2NUJ2_GLYSO (Cleavage stimulation factor subunit 2 OS=Glycine soja GN=glysoja_000439 PE=4 SV=1)

HSP 1 Score: 198.749 bits (504), Expect = 2.448e-52
Identity = 90/97 (92.78%), Postives = 94/97 (96.91%), Query Frame = -2

Query: 1081 LFMASSQHRCVFVGNIPYDATEEQLIEICREVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAENDKGSDRNREQ 1371
            +  + SQHRCVFVGNIPYDATEEQLIEIC+EVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAENDKG+DRNREQ
Sbjct:    1 MATSQSQHRCVFVGNIPYDATEEQLIEICQEVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAENDKGNDRNREQ 97

[Close]

BLAST of g.barbadense_cottongen_reftransV1_0094771 vs. ExPASy TrEMBL
Match: V7BCN6_PHAVU (Uncharacterized protein OS=Phaseolus vulgaris GN=PHAVU_007G085700g PE=4 SV=1)

HSP 1 Score: 199.519 bits (506), Expect = 6.819e-52
Identity = 89/97 (91.75%), Postives = 94/97 (96.91%), Query Frame = -2

Query: 1081 LFMASSQHRCVFVGNIPYDATEEQLIEICREVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAENDKGSDRNREQ 1371
            +  + SQHRCVFVGNIPYDATEEQL+EIC+EVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAENDKG+DRNREQ
Sbjct:    1 MATSQSQHRCVFVGNIPYDATEEQLVEICQEVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAENDKGTDRNREQ 97

[Close]

BLAST of g.barbadense_cottongen_reftransV1_0094771 vs. ExPASy TrEMBL
Match: I1NH74_SOYBN (Uncharacterized protein OS=Glycine max PE=4 SV=1)

HSP 1 Score: 199.904 bits (507), Expect = 7.214e-52
Identity = 90/97 (92.78%), Postives = 94/97 (96.91%), Query Frame = -2

Query: 1081 LFMASSQHRCVFVGNIPYDATEEQLIEICREVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAENDKGSDRNREQ 1371
            +  + SQHRCVFVGNIPYDATEEQLIEIC+EVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAENDKG+DRNREQ
Sbjct:    1 MATSQSQHRCVFVGNIPYDATEEQLIEICQEVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAENDKGNDRNREQ 97

[Close]

BLAST of g.barbadense_cottongen_reftransV1_0094771 vs. ExPASy TrEMBL
Match: I1NH73_SOYBN (Uncharacterized protein OS=Glycine max PE=4 SV=1)

HSP 1 Score: 199.519 bits (506), Expect = 9.498e-52
Identity = 90/97 (92.78%), Postives = 94/97 (96.91%), Query Frame = -2

Query: 1081 LFMASSQHRCVFVGNIPYDATEEQLIEICREVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAENDKGSDRNREQ 1371
            +  + SQHRCVFVGNIPYDATEEQLIEIC+EVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAENDKG+DRNREQ
Sbjct:    1 MATSQSQHRCVFVGNIPYDATEEQLIEICQEVGPVVSFRLVIDRETGKPKGYGFCEYKDEETALSARRNLQGYEINGRQLRVDFAENDKGNDRNREQ 97

The following BLAST results are available for this feature:

BLAST of g.barbadense_cottongen_reftransV1_0094771 vs. ExPASy Swiss-Prot
BLAST of g.barbadense_cottongen_reftransV1_0094771 vs. ExPASy TrEMBL

BLAST of g.barbadense_cottongen_reftransV1_0094771 vs. ExPASy Swiss-Prot
Analysis Date: 2016-11-01 (Homology Analysis for Gossypium barbadense CottonGen RefTrans V1 vs Swissprot)
Total hits: 25


Match Name	E-value	Identity	Description
RBMX2_MOUSE	3.118e-9	40.26	RNA-binding motif protein, X-linked 2 OS=Mus muscu...	[more]
RBMX2_HUMAN	3.222e-9	38.96	RNA-binding motif protein, X-linked 2 OS=Homo sapi...	[more]
ROC5_NICSY	6.377e-9	36.14	33 kDa ribonucleoprotein, chloroplastic OS=Nicotia...	[more]
RBMX2_RAT	6.498e-9	38.96	RNA-binding motif protein, X-linked 2 OS=Rattus no...	[more]
RBG4_ARATH	7.115e-9	32.14	Glycine-rich RNA-binding protein 4, mitochondrial ...	[more]

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BLAST of g.barbadense_cottongen_reftransV1_0094771 vs. ExPASy TrEMBL
Analysis Date: 2016-11-02 (Homology Analysis for Gossypium barbadense CottonGen RefTrans V1 vs TrEMBL)
Total hits: 25


Match Name	E-value	Identity	Description
A0A067JIV2_JATCU	1.837e-52	94.79	Uncharacterized protein OS=Jatropha curcas GN=JCGZ...	[more]
A0A0B2NUJ2_GLYSO	2.448e-52	92.78	Cleavage stimulation factor subunit 2 OS=Glycine s...	[more]
V7BCN6_PHAVU	6.819e-52	91.75	Uncharacterized protein OS=Phaseolus vulgaris GN=P...	[more]
I1NH74_SOYBN	7.214e-52	92.78	Uncharacterized protein OS=Glycine max PE=4 SV=1	[more]
I1NH73_SOYBN	9.498e-52	92.78	Uncharacterized protein OS=Glycine max PE=4 SV=1	[more]

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InterPro

Analysis Name: InterProScan analysis for Gossypium barbadense CottonGen RefTrans V1
Date Performed: 2016-11-02


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PHOBIUS	TRANSMEMBRANE	Transmembrane region	coord: 89..108
None	No IPR available	PHOBIUS	TRANSMEMBRANE	Transmembrane region	coord: 60..83
None	No IPR available	PHOBIUS	NON_CYTOPLASMIC_DOMAIN	Non cytoplasmic domain	coord: 84..88
None	No IPR available	PHOBIUS	CYTOPLASMIC_DOMAIN	Cytoplasmic domain	coord: 1..59
None	No IPR available	PHOBIUS	CYTOPLASMIC_DOMAIN	Cytoplasmic domain	coord: 109..145
None	No IPR available	SIGNALP_EUK	SignalP-noTM	SignalP-noTM	coord: 1..20 score: 0.535
None	No IPR available	TMHMM	TMhelix		coord: 89..111
None	No IPR available	TMHMM	TMhelix		coord: 126..143
None	No IPR available	TMHMM	TMhelix		coord: 60..82

Sequences

The following sequences are available for this feature:

contig sequence

contig sequence

>g.barbadense_cottongen_reftransV1_0094771 ID=g.barbadense_cottongen_reftransV1_0094771; Name=g.barbadense_cottongen_reftransV1_0094771; organism=Gossypium barbadense; type=contig; length=2284bp
GTGGACTGCTTGGCCTCCTAGTTGTTTTTGAGGGTCAAAGTTTGTTGCCA
GTCCAGGTCCACCACGGCCCTGCAATAAAACAAAATTCACTGTTTAAGCT
TATAAATAAAATCTAATTTTGAAAAACCAAAATATCAAACCAAACAGAAG
GAAGAAAACCATTATATTGAAGAAATATAATCCAAAGCAGTAGGATAGTG
CATGTACATGGGCTTTTGTTGCATTGGAATAAACCTCAGTTACCACCAAG
GTTATAGACCAGAGAGTTAGATTGTCAGTATGAAGCATGATAGTAGATCT
ATCATCCAATAGAATGGTTCAAGCCAAATAGCAAACTTTAAAAGTCCCTG
AAATATTTAGCAAACATATCCTTGCAAGCACATCACAACTATGCGTTTAC
ATAAGCATAAATAACTTTATCACAATTTGTATTTTCCTATAATTTCTGCG
ATGACAGTCTAATATAGAAGGCTGAAGGCTTGTCCTAGATTTAATGATTA
ATCTCTCTTTCTTTCAGAAGGGATGTGAATGTGGAGGCATTAGTCCATGA
TATCAAGTTCATTGCAGCTTTTTTGTCCTTTCTATCACTTTTTTTAAGAA
CTAGAATATATTACCTGATAAAATAATAAACATACAGGAATTCAAAAATT
AAAAACCTTATAAGCGTAACCTGAAGCACCAAGTAATACATACACAAGAG
CAAACATCTTTTTATATCATCCAACAGATCAAAGTAAATTTCATGCATGA
GAGCCTAGGCATTAGCATAAAAATTACATAGACCATCCATTAGCACCAAT
TCAGATGTATAGATATCACATAGGAAACATACTCTGCCAAGGTAACTGAA
ATTACACTTTAAAATACAGATATAAACAGTTTGGAATGGAGGGAAATTGG
GTATTTGTGGGCTTAAATTAAATTAATCAATACTAAATAGCCACCTACAC
TGCCTTTGTCATCAAAACCAGTGTTCATATAATCACATCTAACCAATGTC
ACTGTGAGAAGAGAAACTATGACGGTGCTAAATTATCACCCTGATGAAAA
AAATAAAAGATGCAGAAAAAAAGAGTACACCTGTTCTCGGTTTCGATCAG
AGCCTTTGTCATTTTCAGCAAAATCAACTCGCAACTGCCGGCCATTGATC
TCATAACCTTGAAGATTCCTTCGTGCACTTAGAGCTGTCTCCTCATCCTT
GTATTCACAGAACCCATAACCTTTTGGTTTACCAGTTTCTCTATCAATAA
CCAATCTGAAAGAAACAACCGGGCCAACCTCCCTGCAGATTTCTATAAGC
TGTTCTTCAGTAGCATCATATGGTATATTCCCCACAAAAACGCAGCGATG
TTGAGATGAGGCCATGAAAAGGGGGGCGAAAATCAATAGGAGGAGAAGGT
GAAGCAAAGCTGAAGCTTCATCTTCTTACTCCGCATCGCTTTTTTCTTCT
GCTTATTTCAGTCCAATTATATGAAGAGATAAAAAAGAACAGGTACAAGT
GTATTTCGAATTCGATGGTTCCAGCGGTCAATTGGGTTTTCTGCAAGGAT
TTATTATTTTCTCAGTGCAAGGAAAGAAACGAAGATTTTCTGTTGTTTTT
ACTCTTTTTTTTCTTTGAACTTTCTTCTGTGTTCTTTTGTCCTTTTCATC
TTTACTATTTTAATTCTTATAGAATAATAAATATTCCCTTCATCTCTCTC
CATTTGCTTCTCACCTTTGCTTCTCTCTTTTTTCAACCAACCATGGCCTC
TTCTTCAATCCAAGAAGGTAACACTATTGACTCTTCCTTGACTCATCCGT
ATGTTTTCACTATTTTCTTTTTCATTCTTTTTTGTTGCAAAGTTTGAAAC
GGATCCTTTAGCTTAATGATTCACTTTTGATTTATGGGTATTCATTCTTT
CTTCAAAATATTTAATGGGTTCTTTTTAAAATAGGAAAACAGCTTAGTTC
AGTTGACTTACTGTTTTTTTAATTGAATTTTAGCTGAACTTTAGCTTAGT
ATATATCGAGATCCCTTGGAGCTTAGTTTTTTAGAAATAATTTGGGAAGT
TGGGTTCTTTGATTTTGAATTATGTGGTGGTTTTAGTTAGAAATCAAGAA
TAAAGATGAAGAAATTGGAAGGAGGCATCGTTTTTGGTAATTGATTCTTT
GATAGGAGCTGAAAATTCGAATTTCTAATTTTTGGTGGTGGGGTTAAGGA
TTATGACAAAAGTATGGTTTGTTTAGTAATCATATTGATTAGTGATTGAT
TGTTGATTGTTAAGGTGGAGATATGGATCTGGAG

Search form

g.barbadense_cottongen_reftransV1_0094771, g.barbadense_cottongen_reftransV1_0094771 (contig) Gossypium barbadense

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