g.arboreum_cottongen_reftransV1_0015740, g.arboreum_cottongen_reftransV1_0015740 (contig) Gossypium arboreum

Overview
Nameg.arboreum_cottongen_reftransV1_0015740
Unique Nameg.arboreum_cottongen_reftransV1_0015740
Typecontig
OrganismGossypium arboreum (Tree cotton)
Sequence length621
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
Chr4chromosomeg.arboreum_cottongen_reftransV1_0015740:1..621 .
Chr4:25995040..25996030 +
n/a
Homology
BLAST of g.arboreum_cottongen_reftransV1_0015740 vs. ExPASy TrEMBL
Match: I1JDF1_SOYBN (Uncharacterized protein OS=Glycine max PE=4 SV=1)

HSP 1 Score: 394.43 bits (1012), Expect = 1.206e-129
Identity = 186/207 (89.86%), Postives = 198/207 (95.65%), Query Frame = -1
Query:    1 LRVFGKEKGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLNRISQEIDRFKATDASRLRAEYNRLVEGLALRGNLPITDNWLSNPALPDDILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLDTENVEKESPVSFVASINSHAGIDQKTLKFCYDRLHSLMLTL 621
            LR +GKEKGWCPY+LARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQT+EGA RNL+R+ QEID+FKATDA RLRAEYNRLVEGLALRG+LP TD WL+NPALPDDILKEAVPGNIRRAEHF+HVLRRLVQYL GRLDTENVEKESPVSFV SI +HAGIDQK+LKFCYDRLHSLM+TL
Sbjct:  180 LRAYGKEKGWCPYYLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTIEGARRNLSRMRQEIDKFKATDAGRLRAEYNRLVEGLALRGDLPATDAWLANPALPDDILKEAVPGNIRRAEHFIHVLRRLVQYLEGRLDTENVEKESPVSFVVSILNHAGIDQKSLKFCYDRLHSLMMTL 386          
BLAST of g.arboreum_cottongen_reftransV1_0015740 vs. ExPASy TrEMBL
Match: F6HQ82_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VIT_07s0104g00060 PE=4 SV=1)

HSP 1 Score: 393.66 bits (1010), Expect = 2.585e-129
Identity = 186/207 (89.86%), Postives = 198/207 (95.65%), Query Frame = -1
Query:    1 LRVFGKEKGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLNRISQEIDRFKATDASRLRAEYNRLVEGLALRGNLPITDNWLSNPALPDDILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLDTENVEKESPVSFVASINSHAGIDQKTLKFCYDRLHSLMLTL 621
            LR FG++KGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQ+ESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNL++++QEI+RFKATDA RLRAEYNRLVEGLA RGNLPI+D WL+NPALPDDILKEAVPGNIRRAEHFL VLRRLVQYL GRL+TENVEKE PV+FVASINS AGIDQK LKFCYDRLHSLMLTL
Sbjct:  180 LRAFGRDKGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQRESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSKMAQEINRFKATDAGRLRAEYNRLVEGLAQRGNLPISDTWLANPALPDDILKEAVPGNIRRAEHFLSVLRRLVQYLHGRLETENVEKEGPVAFVASINSQAGIDQKMLKFCYDRLHSLMLTL 386          
BLAST of g.arboreum_cottongen_reftransV1_0015740 vs. ExPASy TrEMBL
Match: A0A0D3DIM4_BRAOL (Uncharacterized protein OS=Brassica oleracea var. oleracea GN=ATXPD PE=4 SV=1)

HSP 1 Score: 386.726 bits (992), Expect = 1.321e-126
Identity = 181/207 (87.44%), Postives = 196/207 (94.69%), Query Frame = -1
Query:    1 LRVFGKEKGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLNRISQEIDRFKATDASRLRAEYNRLVEGLALRGNLPITDNWLSNPALPDDILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLDTENVEKESPVSFVASINSHAGIDQKTLKFCYDRLHSLMLTL 621
            LR FGK +GWCPYFLARHMVQFANV+VYSYQYLLDPKVAGIISKE+QKESV+VFDEAHNIDNVCIEALSVSVRR TLEGA RNLN+I QEIDRFKATDA RLRAEYNRL+EGLALRG+L  TD WL+NPALP+DILKEAVPGNIRRAEHF+HVLRRL+QYL GRLDTENVEKESPVSFV+S+NS AGI+QKTLKFCYDRLHSLM+TL
Sbjct:  180 LRAFGKNRGWCPYFLARHMVQFANVIVYSYQYLLDPKVAGIISKELQKESVIVFDEAHNIDNVCIEALSVSVRRVTLEGANRNLNKIRQEIDRFKATDAGRLRAEYNRLIEGLALRGDLSGTDQWLANPALPNDILKEAVPGNIRRAEHFVHVLRRLLQYLGGRLDTENVEKESPVSFVSSLNSQAGIEQKTLKFCYDRLHSLMMTL 386          
BLAST of g.arboreum_cottongen_reftransV1_0015740 vs. ExPASy TrEMBL
Match: A0A072VA92_MEDTR (DNA repair helicase (Rad3) OS=Medicago truncatula GN=MTR_2g084735 PE=4 SV=1)

HSP 1 Score: 386.726 bits (992), Expect = 1.558e-126
Identity = 182/207 (87.92%), Postives = 195/207 (94.20%), Query Frame = -1
Query:    1 LRVFGKEKGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLNRISQEIDRFKATDASRLRAEYNRLVEGLALRGNLPITDNWLSNPALPDDILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLDTENVEKESPVSFVASINSHAGIDQKTLKFCYDRLHSLMLTL 621
            LR FGKEKGWCPYFLARHMVQFANVVVYSYQYLLDPKVA IISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQT++GA RN+NR+ QEID+FKATDA RLRAEYNRLVEGLALRG+LP  D WL+NPALPDDILKEAVPGNIR+AEHF+ VLRRLVQYL GRL+TENVEKE+PVSFV SI +HAGIDQKTLKFCYDRLHSLM+TL
Sbjct:  180 LRTFGKEKGWCPYFLARHMVQFANVVVYSYQYLLDPKVAAIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTVDGARRNINRMRQEIDKFKATDAGRLRAEYNRLVEGLALRGDLPAADGWLANPALPDDILKEAVPGNIRKAEHFIQVLRRLVQYLEGRLETENVEKENPVSFVFSILNHAGIDQKTLKFCYDRLHSLMMTL 386          
BLAST of g.arboreum_cottongen_reftransV1_0015740 vs. ExPASy TrEMBL
Match: A0A068U4Y2_COFCA (Coffea canephora DH200=94 genomic scaffold, scaffold_11 OS=Coffea canephora GN=GSCOC_T00016043001 PE=4 SV=1)

HSP 1 Score: 386.341 bits (991), Expect = 1.777e-126
Identity = 182/207 (87.92%), Postives = 195/207 (94.20%), Query Frame = -1
Query:    1 LRVFGKEKGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLNRISQEIDRFKATDASRLRAEYNRLVEGLALRGNLPITDNWLSNPALPDDILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLDTENVEKESPVSFVASINSHAGIDQKTLKFCYDRLHSLMLTL 621
            LR +GK KGWCPYFLARHMVQ ANVVVYSYQYLLDPKVAGIISKEMQ+ESVVVFDEAHNIDNVCIEALSVSVR QTLEGATRN+NR+SQEIDRFKATDA RLRAEYNRLVEGLALRG+LP +D WL+NPALP+DILKEAVPGNIRRAEHFL VLRRLVQY+RGRL TENVEKE PV+FVAS+N+ AGIDQK L+FCYDRLHSLMLTL
Sbjct:  180 LRAYGKLKGWCPYFLARHMVQLANVVVYSYQYLLDPKVAGIISKEMQRESVVVFDEAHNIDNVCIEALSVSVRMQTLEGATRNINRMSQEIDRFKATDAGRLRAEYNRLVEGLALRGDLPASDAWLANPALPNDILKEAVPGNIRRAEHFLSVLRRLVQYIRGRLQTENVEKEGPVTFVASVNTQAGIDQKMLRFCYDRLHSLMLTL 386          
BLAST of g.arboreum_cottongen_reftransV1_0015740 vs. ExPASy Swiss-Prot
Match: RTEL1_DROPE (Regulator of telomere elongation helicase 1 homolog OS=Drosophila persimilis GN=GL14463 PE=3 SV=1)

HSP 1 Score: 60.077 bits (144), Expect = 2.135e-9
Identity = 27/83 (32.53%), Postives = 47/83 (56.63%), Query Frame = -1
Query:  361 GKEKGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLNRI 609
            G++   CPY+ ++ +V  A++    Y YLLDPK       E+   ++++ DEAHNI+ +C E+ SV +R   +  A  ++  I
Sbjct:  203 GQKLKMCPYYASKELVAQADITFMPYNYLLDPKARKANKIEL-GNTIIILDEAHNIEKICEESASVQIRSSDVAMAIEDVTHI 284          
BLAST of g.arboreum_cottongen_reftransV1_0015740 vs. ExPASy Swiss-Prot
Match: RTEL1_DROPS (Regulator of telomere elongation helicase 1 homolog OS=Drosophila pseudoobscura pseudoobscura GN=GA17940 PE=3 SV=2)

HSP 1 Score: 60.077 bits (144), Expect = 2.155e-9
Identity = 27/83 (32.53%), Postives = 47/83 (56.63%), Query Frame = -1
Query:  361 GKEKGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLNRI 609
            G++   CPY+ ++ +V  A++    Y YLLDPK       E+   ++++ DEAHNI+ +C E+ SV +R   +  A  ++  I
Sbjct:  203 GQKLKMCPYYASKELVAQADITFMPYNYLLDPKARKANKIEL-GNTIIILDEAHNIEKICEESASVQIRSSDVAMAIEDVTHI 284          
BLAST of g.arboreum_cottongen_reftransV1_0015740 vs. ExPASy Swiss-Prot
Match: RTEL1_RAT (Regulator of telomere elongation helicase 1 OS=Rattus norvegicus GN=Rtel1 PE=2 SV=2)

HSP 1 Score: 59.6918 bits (143), Expect = 3.360e-9
Identity = 29/89 (32.58%), Postives = 53/89 (59.55%), Query Frame = -1
Query:  343 GKEKGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLNRISQEIDR 609
            G +   CPY+L+R++ Q A+++   Y YLLD K     + ++ K +VV+FDEAHN++ +C E+ S  +  + +      +N++ +E  R
Sbjct:  201 GSKHKVCPYYLSRNLKQQADIIFMPYNYLLDAKSRKAHNIDL-KGTVVIFDEAHNVEKICEESASFDLTPRDVASGLEVINQVLEEQAR 288          
BLAST of g.arboreum_cottongen_reftransV1_0015740 vs. ExPASy Swiss-Prot
Match: RTEL1_DROAN (Regulator of telomere elongation helicase 1 homolog OS=Drosophila ananassae GN=GF20802 PE=3 SV=1)

HSP 1 Score: 58.9214 bits (141), Expect = 5.267e-9
Identity = 27/83 (32.53%), Postives = 47/83 (56.63%), Query Frame = -1
Query:  361 GKEKGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLNRI 609
            G++   CPY+ ++ +V  A++    Y YLLDPK       E+   ++V+ DEAHNI+ +C E+ SV ++   +  A  ++  I
Sbjct:  203 GQKLKMCPYYASKELVPQADITFMPYNYLLDPKARKANKIEL-GNTIVILDEAHNIEKICEESASVQIKSSDVAIAIEDVTHI 284          
BLAST of g.arboreum_cottongen_reftransV1_0015740 vs. ExPASy Swiss-Prot
Match: FANCJ_HUMAN (Fanconi anemia group J protein OS=Homo sapiens GN=BRIP1 PE=1 SV=1)

HSP 1 Score: 58.9214 bits (141), Expect = 5.530e-9
Identity = 37/110 (33.64%), Postives = 57/110 (51.82%), Query Frame = -1
Query:  283 FGKEKGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLNRISQEIDRFKATDASRLRAEYNRLVEGL 612
             GK+   CPY+ AR ++Q A+++   Y YLLD ++   +   + KE VV+ DEAHNI++   E+ S SV    L  A   L+ +    +  +  D   LRA    L+  L
Sbjct:  343 LGKKLKACPYYTARELIQDADIIFCPYNYLLDAQIRESMDLNL-KEQVVILDEAHNIEDCARESASYSVTEVQLRFARDELDSMVN--NNIRKKDHEPLRAVCCSLINWL 449          
The following BLAST results are available for this feature:
BLAST of g.arboreum_cottongen_reftransV1_0015740 vs. ExPASy TrEMBL
Analysis Date: 2016-11-15 (Homology Analysis for Gossypium arboreum CottonGen RefTrans V1 vs TrEMBL)
Total hits: 25
Match NameE-valueIdentityDescription
I1JDF1_SOYBN1.206e-12989.86Uncharacterized protein OS=Glycine max PE=4 SV=1[more]
F6HQ82_VITVI2.585e-12989.86Putative uncharacterized protein OS=Vitis vinifera... [more]
A0A0D3DIM4_BRAOL1.321e-12687.44Uncharacterized protein OS=Brassica oleracea var. ... [more]
A0A072VA92_MEDTR1.558e-12687.92DNA repair helicase (Rad3) OS=Medicago truncatula ... [more]
A0A068U4Y2_COFCA1.777e-12687.92Coffea canephora DH200=94 genomic scaffold, scaffo... [more]

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BLAST of g.arboreum_cottongen_reftransV1_0015740 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
RTEL1_DROPE2.135e-932.53Regulator of telomere elongation helicase 1 homolo... [more]
RTEL1_DROPS2.155e-932.53Regulator of telomere elongation helicase 1 homolo... [more]
RTEL1_RAT3.360e-932.58Regulator of telomere elongation helicase 1 OS=Rat... [more]
RTEL1_DROAN5.267e-932.53Regulator of telomere elongation helicase 1 homolo... [more]
FANCJ_HUMAN5.530e-933.64Fanconi anemia group J protein OS=Homo sapiens GN=... [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
NoneNo IPR availableCOILSCoilCoilcoord: 77..97
NoneNo IPR availablePANTHERPTHR11472DNA REPAIR DEAD HELICASE RAD3/XP-D SUBFAMILY MEMBERcoord: 1..207
NoneNo IPR availablePANTHERPTHR11472:SF1TFIIH BASAL TRANSCRIPTION FACTOR COMPLEX HELICASE XPD SUBUNITcoord: 1..207
IPR001945RAD3/XPD familyPRINTSPR00852XRODRMPGMNTDcoord: 154..175
score: 46.75
coord: 193..207
score: 37.27
coord: 94..113
score: 60.0
coord: 129..147
score: 70.68
IPR006554Helicase-like, DEXD box c2 typeSMARTSM00488deadxpdcoord: 1..101
e-value: 0.0047
score: -97.6
IPR010643Helical and beta-bridge domainPFAMPF06777HBBcoord: 91..207
e-value: 4.9E-22
score: 78.4
IPR010614DEAD2PFAMPF06733DEAD_2coord: 4..77
e-value: 1.8E-27
score: 96.0
IPR002464DNA/RNA helicase, ATP-dependent, DEAH-box type, conserved sitePROSITEPS00690DEAH_ATP_HELICASEcoord: 50..59
IPR014013Helicase superfamily 1/2, ATP-binding domain, DinG/Rad3-typePROSITEPS51193HELICASE_ATP_BIND_2coord: 1..106
score: 17.915

Sequences
The following sequences are available for this feature:

contig sequence

>g.arboreum_cottongen_reftransV1_0015740 ID=g.arboreum_cottongen_reftransV1_0015740; Name=g.arboreum_cottongen_reftransV1_0015740; organism=Gossypium arboreum; type=contig; length=621bp
TAGAGTCAACATGAGTGAATGCAGACGATCATAACAGAACTTCAATGTTT
TCTGGTCAATTCCAGCATGACTATTGATAGATGCAACAAAGCTAACTGGG
CTTTCTTTCTCAACATTCTCCGTGTCTAGTCGGCCCCTTAGATACTGAAC
TAATCTACGTAGGACATGCAAAAAGTGCTCCGCTCGACGGATATTTCCAG
GCACAGCTTCCTTTAGAATATCATCAGGCAGTGCAGGATTTGAAAGCCAG
TTGTCAGTGATAGGTAGGTTTCCTCTCAATGCCAAACCCTCTACAAGTCG
GTTGTATTCAGCACGAAGTCGGCTTGCATCAGTGGCCTTGAACCTATCAA
TCTCTTGACTTATCCTATTAAGATTCCTTGTAGCTCCTTCAAGTGTCTGT
CTCCTAACACTAACACTAAGTGCTTCAATACACACATTGTCAATATTATG
GGCCTCATCAAACACCACAACAGACTCCTTCTGCATTTCCTTTGATATGA
TCCCAGCCACCTTTGGATCAAGTAAATACTGATAACTATAAACGACCACA
TTAGCAAACTGTACCATATGTCTCGCCAAAAAATACGGACACCACCCTTT
CTCCTTCCCAAACACCCTCAA
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Annotated Terms
The following terms have been associated with this contig:
Vocabulary: INTERPRO
TermDefinition
IPR001945RAD3/XPD
IPR006554Helicase-like_DEXD_c2
IPR010643HBB
IPR010614RAD3-like_helicase_DEAD
IPR002464DNA/RNA_helicase_DEAH_CS
IPR014013Helic_SF1/SF2_ATP-bd_DinG/Rad3
Vocabulary: Cellular Component
TermDefinition
GO:0005634nucleus
Vocabulary: Molecular Function
TermDefinition
GO:0004003ATP-dependent DNA helicase activity
GO:0003677DNA binding
GO:0005524ATP binding
GO:0016818hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides
GO:0008026ATP-dependent helicase activity
GO:0003676nucleic acid binding
Vocabulary: Biological Process
TermDefinition
GO:0006289nucleotide-excision repair