g.arboreum_cottongen_reftransV1_0013122, g.arboreum_cottongen_reftransV1_0013122 (contig) Gossypium arboreum

Overview
Nameg.arboreum_cottongen_reftransV1_0013122
Unique Nameg.arboreum_cottongen_reftransV1_0013122
Typecontig
OrganismGossypium arboreum (Tree cotton)
Sequence length1122
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
Chr1chromosomeg.arboreum_cottongen_reftransV1_0013122:1..1122 .
Chr1:135306793..135310141 +
n/a
Homology
BLAST of g.arboreum_cottongen_reftransV1_0013122 vs. ExPASy TrEMBL
Match: F4ZKM1_ACTCH (AP3 OS=Actinidia chinensis PE=2 SV=1)

HSP 1 Score: 291.197 bits (744), Expect = 1.904e-93
Identity = 150/229 (65.50%), Postives = 182/229 (79.48%), Query Frame = -1
Query:  325 MGRGKIEIKKIENATNRQVTYSKRRNGLFKKAQELTVLCDAKVSLIMFSSTGKFHEFLSPNISTKGFFDLYQKTTGIDLWNSHYERMEENYRRLKEINKKLRREIRQRMGGDLSELNIKELQALEAKMDSSLLAIRERKYHVIKTQTDKHKKKVRNLEERHANLIMDLEAKLD--GQDGIVETGGYYESTMGLLPNGASNLYALRLYQNQQPPL---VLHDGTNDLRLA 996
            MGRGKIEIK+IEN TNRQVTYSKRRNG+FKKAQELTVLCDAKVSLIM S+TGK HE++SPNISTK  +D YQKT GIDLW++HYERM+E+ R+LKE+N +LRREIRQ+MG +L++L++ EL+ LE KM +SL  IR+RKYHVIKTQT+ ++KKVRNLEERH NL++D EAK D   Q  +VE  G Y+S +    NG SNLYA RL Q   P L       G++DLRLA
Sbjct:    1 MGRGKIEIKRIENPTNRQVTYSKRRNGIFKKAQELTVLCDAKVSLIMLSNTGKLHEYISPNISTKKIYDQYQKTLGIDLWSTHYERMQEHLRKLKEVNNRLRREIRQKMGEELNDLSVHELRGLEQKMSASLTIIRDRKYHVIKTQTETYRKKVRNLEERHGNLLLDFEAKCDLAPQYELVENEGDYDSAVA-FANGVSNLYAFRL-QPNHPNLHHHGGGCGSHDLRLA 227          
BLAST of g.arboreum_cottongen_reftransV1_0013122 vs. ExPASy TrEMBL
Match: V4RVJ9_9ROSI (Uncharacterized protein OS=Citrus clementina GN=CICLE_v10026433mg PE=4 SV=1)

HSP 1 Score: 290.041 bits (741), Expect = 4.275e-93
Identity = 147/230 (63.91%), Postives = 177/230 (76.96%), Query Frame = -1
Query:  325 MGRGKIEIKKIENATNRQVTYSKRRNGLFKKAQELTVLCDAKVSLIMFSSTGKFHEFLSPNISTKGFFDLYQKTTGIDLWNSHYERMEENYRRLKEINKKLRREIRQRMGGDLSELNIKELQALEAKMDSSLLAIRERKYHVIKTQTDKHKKKVRNLEERHANLIMDLEAKLDGQD-GIVETGGYYESTMGLLPNGASNLYALRLYQNQQPPLVLHDGT-----NDLRLA 996
            MGRGKIEIK+IEN TNRQVTYSKRRNG+FKKAQELTVLCDAKVSLIM S+TGKFHE++SP  +TK  FD YQK+ G+DLW++HY +M+E+YR+LKEIN KLR++IRQRMG DL +L  +EL+ LE  M SS   +RERK+HVIKTQTD +KKKVRNLEERH N+++D E K D    G+V+ G  Y+S M  L NGASNLYA R+ Q       LH GT     +DL LA
Sbjct:    1 MGRGKIEIKRIENPTNRQVTYSKRRNGIFKKAQELTVLCDAKVSLIMVSNTGKFHEYISPTTTTKKMFDQYQKSLGVDLWSTHYAKMQESYRKLKEINNKLRKDIRQRMGEDLDDLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDFETKYDDPHYGLVDNGD-YQSAMA-LANGASNLYAFRMQQQN-----LHQGTGGYGSSDLTLA 223          
BLAST of g.arboreum_cottongen_reftransV1_0013122 vs. ExPASy TrEMBL
Match: Q9LLA1_PETHY (MADS box transcription factor TM6 OS=Petunia hybrida GN=TM6 PE=2 SV=1)

HSP 1 Score: 280.796 bits (717), Expect = 1.613e-89
Identity = 146/227 (64.32%), Postives = 171/227 (75.33%), Query Frame = -1
Query:  325 MGRGKIEIKKIENATNRQVTYSKRRNGLFKKAQELTVLCDAKVSLIMFSSTGKFHEFLSPNISTKGFFDLYQKTTGIDLWNSHYERMEENYRRLKEINKKLRREIRQRMGGDLSELNIKELQALEAKMDSSLLAIRERKYHVIKTQTDKHKKKVRNLEERHANLIMDLEAKL-DGQDGIVETGGYYESTMGLLPNGASNLYALRLYQNQQPPLVLHD--GTNDLRLA 996
            MGRGKIEIKKIEN+TNRQVTYSKRRNGLFKKA+ELTVLCDAK+ LIM SST KFHE+ SPN +TK   DLYQ+T G+D+WN HYE+M+EN  RLK+IN KLRREIRQR G D+S LN++EL  L+  +  SL  IRERKYHVIKTQTD  +K+VRNLEE+H +L+ DLEAK  D   G+VE  G++ S M    NG  NLYA RL Q   P L      G+ DLRLA
Sbjct:    1 MGRGKIEIKKIENSTNRQVTYSKRRNGLFKKAKELTVLCDAKICLIMLSSTRKFHEYTSPNTTTKKMIDLYQRTLGVDIWNKHYEKMQENLNRLKDINNKLRREIRQRTGEDMSGLNLQELCHLQGNVSDSLAEIRERKYHVIKTQTDTCRKRVRNLEEQHGSLVHDLEAKSEDPTYGVVENEGHFNSAMA-FANGVHNLYAFRL-QTLHPNLQNGGGFGSRDLRLA 225          
BLAST of g.arboreum_cottongen_reftransV1_0013122 vs. ExPASy TrEMBL
Match: A0A0D2QE54_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_003G011500 PE=4 SV=1)

HSP 1 Score: 278.1 bits (710), Expect = 2.815e-89
Identity = 135/139 (97.12%), Postives = 137/139 (98.56%), Query Frame = -1
Query:  580 MGRGKIEIKKIENATNRQVTYSKRRNGLFKKAQELTVLCDAKVSLIMFSSTGKFHEFLSPNISTKGFFDLYQKTTGIDLWNSHYERMEENYRRLKEINKKLRREIRQRMGGDLSELNIKELQALEAKMDSSLLAIRERK 996
            MGRGKIEIKKIENATNRQVTYSKRRNGLFKKAQELTVLCDAKVSLIMFSSTGKFHEFLSPNISTKG FDLYQK TGIDLWNSHYERM+ENYRRLKEINKKLRREIRQRMGGDL+ELNIKELQALEAKMDSSLLAIRERK
Sbjct:    1 MGRGKIEIKKIENATNRQVTYSKRRNGLFKKAQELTVLCDAKVSLIMFSSTGKFHEFLSPNISTKGVFDLYQKATGIDLWNSHYERMDENYRRLKEINKKLRREIRQRMGGDLNELNIKELQALEAKMDSSLLAIRERK 139          
BLAST of g.arboreum_cottongen_reftransV1_0013122 vs. ExPASy TrEMBL
Match: Q40513_TOBAC (MADS-box protein OS=Nicotiana tabacum PE=2 SV=1)

HSP 1 Score: 277.715 bits (709), Expect = 3.333e-88
Identity = 135/217 (62.21%), Postives = 167/217 (76.96%), Query Frame = -1
Query:  346 MGRGKIEIKKIENATNRQVTYSKRRNGLFKKAQELTVLCDAKVSLIMFSSTGKFHEFLSPNISTKGFFDLYQKTTGIDLWNSHYERMEENYRRLKEINKKLRREIRQRMGGDLSELNIKELQALEAKMDSSLLAIRERKYHVIKTQTDKHKKKVRNLEERHANLIMDLEAKLDGQDGIVETGGYYESTMGLLPNGASNLYALRLYQNQQPPLVLHDG 996
            M RGKI+IK+IEN TNRQVTYSKRRNGLFKKA ELTVLCDAKVS+IM SSTGK HEF+SP+++TK  FDLYQKT G+DLWNSHYE+M+E  R+LK++N+ LRREIRQRMG  L++LN ++L+ L   +D+SL  IRERKY VI  Q D +KKKVRN+EE H NL+++ +A+ +   G+VE  G Y S +G  PNG   + ALRL  N QP   LH G
Sbjct:    1 MARGKIQIKRIENQTNRQVTYSKRRNGLFKKANELTVLCDAKVSIIMISSTGKLHEFISPSVTTKQLFDLYQKTVGVDLWNSHYEKMQEQLRKLKDVNRNLRREIRQRMGESLNDLNYEQLEELNENVDNSLKLIRERKYKVIGNQIDTYKKKVRNVEEIHRNLLLEFDARQEDPYGLVEQEGDYNSVLG-FPNGGPRILALRLQPNHQPNHHLHSG 216          
BLAST of g.arboreum_cottongen_reftransV1_0013122 vs. ExPASy Swiss-Prot
Match: MADS6_ORYSJ (MADS-box transcription factor 6 OS=Oryza sativa subsp. japonica GN=MADS6 PE=1 SV=1)

HSP 1 Score: 125.176 bits (313), Expect = 1.280e-31
Identity = 78/203 (38.42%), Postives = 112/203 (55.17%), Query Frame = -1
Query:  442 MGRGKIEIKKIENATNRQVTYSKRRNGLFKKAQELTVLCDAKVSLIMFSSTGKFHEFLSPNIS------TKGFFDLYQKTTGIDLWNSHYERMEENYRRLKEINKKLRREIRQRMGGDLSELNIKELQALEAKMDSSLLAIRERKYHVIKTQTDKHKKKVRNLEERHANLIMDLEAKLD------------GQDGIVETGGYY 996
            MGRG++E+K+IEN  NRQVT+SKRRNGL KKA EL+VLCDA+V+LI+FSS GK +EF S  I+          ++       +    S Y  M     +LK   + L+R  R  +G DL  L++KELQ LE +++ +L   R+RK  ++  Q ++ ++K R L E +  L   LE +               Q  +VE G  Y
Sbjct:    1 MGRGRVELKRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIIFSSRGKLYEFGSAGITKTLERYQHCCYNAQDSNNALSETQSWYHEMS----KLKAKFEALQRTQRHLLGEDLGPLSVKELQQLEKQLECALSQARQRKTQLMMEQVEELRRKERQLGEINRQLKHKLEVEGSTSNYRAMQQASWAQGAVVENGAAY 199          
BLAST of g.arboreum_cottongen_reftransV1_0013122 vs. ExPASy Swiss-Prot
Match: MAD57_ORYSJ (MADS-box transcription factor 57 OS=Oryza sativa subsp. japonica GN=MADS57 PE=2 SV=2)

HSP 1 Score: 123.635 bits (309), Expect = 2.941e-31
Identity = 85/242 (35.12%), Postives = 133/242 (54.96%), Query Frame = -1
Query:  319 MGRGKIEIKKIENATNRQVTYSKRRNGLFKKAQELTVLCDAKVSLIMFSSTGKFHEFLSPNISTKGFFDLY----------QKTTGIDLWNSHYERMEENYRRLKEINKKLRREIRQRMGGDLSELNIKELQALEAKMDSSLLAIRERKYHVIKTQTDK-HKKKV----RNLE-ERHANLIMDLEAKLDGQDGIVETGGYYESTMGLLPNGASNLYALRLYQNQQPPLVLHDGTNDLRLA*C 996
            MGRGKI I++I+N+T+RQVT+SKRRNGL KKA+EL++LCDA+V L++FSSTG+ +EF S N+ T    D Y            T+ I +W      + +    L+E +K+L       MG +LS L +++LQ LE +++ SL  IR RK +++K++ ++ H K       N+E  R  N++   + +L  +    E  G  ++        +S  Y+ R+ QN   P  L    +  R   C
Sbjct:    1 MGRGKIVIRRIDNSTSRQVTFSKRRNGLLKKAKELSILCDAEVGLVVFSSTGRLYEFSSTNMKT--VIDRYTNAKEELLGGNATSEIKIWQREAASLRQQLHNLQESHKQL-------MGEELSGLGVRDLQGLENRLEISLRNIRMRKDNLLKSEIEELHVKGSLIHQENIELSRSLNVMSQQKLELYNKLQACEQRGATDAN-----ESSSTPYSFRIIQNANMPPSLELSQSQQREGEC 228          
BLAST of g.arboreum_cottongen_reftransV1_0013122 vs. ExPASy Swiss-Prot
Match: MAD23_ORYSJ (MADS-box transcription factor 23 OS=Oryza sativa subsp. japonica GN=MADS23 PE=2 SV=1)

HSP 1 Score: 120.168 bits (300), Expect = 7.449e-31
Identity = 70/165 (42.42%), Postives = 103/165 (62.42%), Query Frame = -1
Query:  535 MGRGKIEIKKIENATNRQVTYSKRRNGLFKKAQELTVLCDAKVSLIMFSSTGKFHEFLSPNISTKGFFDLYQKT-----------TGIDLWNSHYERMEENYRRLKEINKKLRREIRQRMGGDLSELNIKELQALEAKMDSSLLAIRERKYHVIKTQTDKHKKKV 996
            MGRGKIEIK+I+NAT+RQVT+SKRR+GLFKKA+EL++LCDA+V L++FSST + ++F S   S K   + Y +T           +   LW      + +    L+E +       RQ +G  LS L++++LQ LE+K++ SL  IR RK +V+  Q  +  +KV
Sbjct:    1 MGRGKIEIKRIDNATSRQVTFSKRRSGLFKKARELSILCDAEVGLLVFSSTSRLYDFASS--SMKSIIERYNETKEDPHQTMNASSEAKLWQQEAASLRQQLHNLQEYH-------RQLLGQQLSGLDVEDLQNLESKLEMSLKNIRLRKDNVMMDQIQELSRKV 156          
BLAST of g.arboreum_cottongen_reftransV1_0013122 vs. ExPASy Swiss-Prot
Match: SEP2_ARATH (Developmental protein SEPALLATA 2 OS=Arabidopsis thaliana GN=SEP2 PE=1 SV=1)

HSP 1 Score: 122.479 bits (306), Expect = 1.206e-30
Identity = 73/151 (48.34%), Postives = 101/151 (66.89%), Query Frame = -1
Query:  559 MGRGKIEIKKIENATNRQVTYSKRRNGLFKKAQELTVLCDAKVSLIMFSSTGKFHEFLSPNISTKGFFDLYQKTT--GIDLWNSHYERMEENYR---RLKEINKKLRREIRQRMGGDLSELNIKELQALEAKMDSSLLAIRERKYHVIKTQ 996
            MGRG++E+K+IEN  NRQVT++KRRNGL KKA EL+VLCDA+VSLI+FS+ GK +EF S +   K   + YQK +   I++ N   + +E +YR   +LK   + L+R+ R  +G DL  LN KEL+ LE ++D SL  +R      IKTQ
Sbjct:    1 MGRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVSLIVFSNRGKLYEFCSTSNMLK-TLERYQKCSYGSIEVNNKPAKELENSYREYLKLKGRYENLQRQQRNLLGEDLGPLNSKELEQLERQLDGSLKQVR-----CIKTQ 145          
BLAST of g.arboreum_cottongen_reftransV1_0013122 vs. ExPASy Swiss-Prot
Match: MADS4_ORYSJ (MADS-box transcription factor 4 OS=Oryza sativa subsp. japonica GN=MADS4 PE=1 SV=3)

HSP 1 Score: 120.168 bits (300), Expect = 3.003e-30
Identity = 82/222 (36.94%), Postives = 123/222 (55.41%), Query Frame = -1
Query:  361 MGRGKIEIKKIENATNRQVTYSKRRNGLFKKAQELTVLCDAKVSLIMFSSTGKFHEFLSPNISTKGFFDL------YQKTTGIDLWNSHYERMEENYRRLKEINKKLRREIRQRMGGDLSELNIKELQALEAKMDSSLLAIRERKYHVIKTQTDKHKKKVRNLEERHANL---IMDLEAKLDGQDGIVETG-GYYESTMGLLPNGASNLYALRLYQNQQPPL 996
            MGRGKIEIK+IEN+TNRQVT+SKRR G+ KKA+E+ VLCDA+V +++FSS GK  ++ +P  +T  F  L      YQ  +G  LW+  ++ +     R+K+ N  ++ E+R   G DL+ L  KEL A+E  +++    +R++    +      HK+  + LE+ H  L   +   E +L G  GI E   GY+          AS  +  R+ Q   P L
Sbjct:    1 MGRGKIEIKRIENSTNRQVTFSKRRAGILKKAREIGVLCDAEVGVVIFSSAGKLSDYCTPK-TTSVFPPLSRILEKYQTNSGKILWDEKHKSLSAEIDRVKKENDNMQIELRHMKGEDLNSLQPKELIAIEEALNNGQANLRDK----MMDHWRMHKRNEKMLEDEHKMLAFRVHQQEVELSG--GIRELELGYHHDDRDF---AASMPFTFRV-QPSHPNL 211          
The following BLAST results are available for this feature:
BLAST of g.arboreum_cottongen_reftransV1_0013122 vs. ExPASy TrEMBL
Analysis Date: 2016-11-15 (Homology Analysis for Gossypium arboreum CottonGen RefTrans V1 vs TrEMBL)
Total hits: 25
Match NameE-valueIdentityDescription
F4ZKM1_ACTCH1.904e-9365.50AP3 OS=Actinidia chinensis PE=2 SV=1[more]
V4RVJ9_9ROSI4.275e-9363.91Uncharacterized protein OS=Citrus clementina GN=CI... [more]
Q9LLA1_PETHY1.613e-8964.32MADS box transcription factor TM6 OS=Petunia hybri... [more]
A0A0D2QE54_GOSRA2.815e-8997.12Uncharacterized protein OS=Gossypium raimondii GN=... [more]
Q40513_TOBAC3.333e-8862.21MADS-box protein OS=Nicotiana tabacum PE=2 SV=1[more]

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BLAST of g.arboreum_cottongen_reftransV1_0013122 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
MADS6_ORYSJ1.280e-3138.42MADS-box transcription factor 6 OS=Oryza sativa su... [more]
MAD57_ORYSJ2.941e-3135.12MADS-box transcription factor 57 OS=Oryza sativa s... [more]
MAD23_ORYSJ7.449e-3142.42MADS-box transcription factor 23 OS=Oryza sativa s... [more]
SEP2_ARATH1.206e-3048.34Developmental protein SEPALLATA 2 OS=Arabidopsis t... [more]
MADS4_ORYSJ3.003e-3036.94MADS-box transcription factor 4 OS=Oryza sativa su... [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: 147..167
NoneNo IPR availableCOILSCoilCoilcoord: 77..107
NoneNo IPR availablePANTHERPTHR11945MADS BOX PROTEINcoord: 2..208
NoneNo IPR availablePANTHERPTHR11945:SF219FLORAL HOMEOTIC PROTEIN APETALA 3coord: 2..208
IPR002100Transcription factor, MADS-boxPRINTSPR00404MADSDOMAINcoord: 3..23
score: 67.42
coord: 38..59
score: 55.24
coord: 23..38
score: 75.63
IPR002100Transcription factor, MADS-boxSMARTSM00432madsneu2coord: 1..60
e-value: 2.1E-41
score: 153.6
IPR002100Transcription factor, MADS-boxPFAMPF00319SRF-TFcoord: 10..57
e-value: 9.3E-25
score: 85.7
IPR002100Transcription factor, MADS-boxPROSITEPS00350MADS_BOX_1coord: 3..57
IPR002100Transcription factor, MADS-boxPROSITEPS50066MADS_BOX_2coord: 1..61
score: 32.674
IPR002100Transcription factor, MADS-boxSUPERFAMILY55455SRF-likecoord: 2..95
IPR002487Transcription factor, K-boxPFAMPF01486K-boxcoord: 82..165
e-value: 2.3E-20
score: 72.4
IPR002487Transcription factor, K-boxPROSITEPS51297K_BOXcoord: 84..178
score: 14.807

Sequences
The following sequences are available for this feature:

contig sequence

>g.arboreum_cottongen_reftransV1_0013122 ID=g.arboreum_cottongen_reftransV1_0013122; Name=g.arboreum_cottongen_reftransV1_0013122; organism=Gossypium arboreum; type=contig; length=1122bp
CTCGCGAAAGAATTAACATCCCCGAACAAAGATAAATTGTAAGTAATTTA
GTATTACATCAATAACGCAACAACACTTTCACTTGTCTTAGGAAAAGAAA
AGTCATTAGGGCAATAAGGTACACCGAAAATCTCGCTACTTTCAGGCGCC
CATTAATTCACCATGCAACTTTCTAACTCATACATACATACATACATATA
TTGACATGAGTTAGCAGTATAGTAATGAAGAGATAGAGAATGTATGAGTT
AGCAGTATAGTAAAGAAGAGATAGAGATTAAATACAGTCTGCAATGGAGG
GGACATCCACAGAGACCAGCATCAAGCAAGGCGAAGATCATTGGTTCCAT
CGTGAAGAACAAGTGGAGGCTGTTGGTTTTGGTAAAGGCGAAGGGCATAT
AAATTAGAAGCTCCATTTGGTAGTAGTCCCATTGTTGATTCATAATATCC
TCCGGTTTCAACTATTCCATCTTGACCATCAAGCTTTGCCTCCAAGTCCA
TGATAAGATTTGCATGTCTTTCCTCCAAATTCCTTACCTTCTTCTTGTGT
TTGTCTGTTTGAGTTTTGATGACATGGTACTTTCTCTCACGTATAGCTAG
CAAAGAAGAATCCATTTTAGCTTCAAGAGCTTGCAGTTCCTTAATGTTAA
GTTCACTCAAGTCTCCACCCATTCTCTGCCTAATCTCCCTTCTCAGCTTC
TTGTTTATCTCCTTCAACCTCCTGTAATTTTCTTCCATTCTCTCATAATG
GGAGTTCCATAGATCAATCCCTGTGGTCTTTTGGTATAGATCAAAAAACC
CTTTTGTCGAGATGTTGGGGCTAAGGAACTCATGAAATTTGCCAGTGCTG
GAGAACATGATCAATGAAACCTTGGCGTCACAAAGAACAGTGAGCTCTTG
GGCTTTCTTGAATAAACCGTTCCTTCGTTTTGAATAAGTGACTTGCCTGT
TTGTAGCGTTCTCAATCTTCTTGATCTCGATCTTCCCACGACCCATTGTT
GGTTTCTTTCAAGTGAATGATCAAATGAGAAAGAGGGTAGCAGCTAGGCT
TAAAGGGGTTTGCAGCAAAATAAGGTTAAATGAGAAAAATGGTGATGAAA
AGGGAATTGAATCCCATATCGG
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Annotated Terms
The following terms have been associated with this contig:
Vocabulary: INTERPRO
TermDefinition
IPR002100TF_MADSbox
IPR002487TF_Kbox
Vocabulary: Molecular Function
TermDefinition
GO:0003677DNA binding
GO:0046983protein dimerization activity
GO:0003700DNA-binding transcription factor activity
Vocabulary: Cellular Component
TermDefinition
GO:0005634nucleus
Vocabulary: Biological Process
TermDefinition
GO:0006355regulation of DNA-templated transcription