PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Gorai.009G313100.1

Common Name

B456_009G313100, LOC105770944

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

C2H2

Protein Properties

Length: 1497aa MW: 166439 Da PI: 6.793

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.009G313100.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	11.8	0.00075	1385	1408	3	23
ET..TTTEEESSHHHHHHHHHH.T CS zf-C2H2 3 Cp..dCgksFsrksnLkrHirt.H 23 C C++sF++k++L+ H r+ + Gorai.009G313100.1 1385 CDleGCHMSFKTKEELRLHKRNrC 1408 77779***************9877 PP
2	zf-C2H2	11.1	0.0013	1407	1430	2	23
EET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCp..dCgksFsrksnLkrHirtH 23 +Cp Cgk F+++ + + H+r+H Gorai.009G313100.1 1407 RCPyeGCGKKFRSHKYAVLHQRVH 1430 69999*****************99 PP
3	zf-C2H2	11.4	0.00097	1466	1492	1	23
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 ykC+ Cg sF+ s++ rH r+ H Gorai.009G313100.1 1466 YKCKveGCGLSFRFVSDFSRHRRKtgH 1492 99*********************9777 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00545	8.5E-14	15	55	IPR003349	JmjN domain
PROSITE profile	PS51183	13.883	16	57	IPR003349	JmjN domain
Pfam	PF02375	8.9E-15	17	50	IPR003349	JmjN domain
SuperFamily	SSF51197	9.34E-27	278	451	No hit	No description
SMART	SM00558	1.0E-44	284	453	IPR003347	JmjC domain
PROSITE profile	PS51184	33.839	284	453	IPR003347	JmjC domain
Pfam	PF02373	2.5E-35	317	436	IPR003347	JmjC domain
SMART	SM00355	22	1383	1405	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	0.036	1406	1430	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	1.78E-5	1406	1443	No hit	No description
PROSITE profile	PS50157	11.863	1406	1435	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	1.5E-4	1407	1430	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	1408	1430	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	1.5E-9	1431	1458	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0016	1436	1460	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.803	1436	1465	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1438	1460	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	1.02E-9	1446	1488	No hit	No description
Gene3D	G3DSA:3.30.160.60	7.5E-10	1459	1489	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.22	1466	1492	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	9.619	1466	1496	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1468	1492	IPR007087	Zinc finger, C2H2

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009741	Biological Process	response to brassinosteroid
GO:0009826	Biological Process	unidimensional cell growth
GO:0033169	Biological Process	histone H3-K9 demethylation
GO:0048577	Biological Process	negative regulation of short-day photoperiodism, flowering
GO:0048579	Biological Process	negative regulation of long-day photoperiodism, flowering
GO:0005634	Cellular Component	nucleus
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 1497 aa Download sequence Send to blast
MGNVEIPKWL KRLPLAPEFR PTDTEFADPI AYISKIEKEA GAYGICKIIP PLPKPSKRYV 60 FNNLNRSLSK SPELGSDVNI GSVSNFGDSG GDVRERRAVF TTRHQELGRS GKRMKGVVSS 120 PQCGAQKQVW QSGEIYTLEQ FESKSKTFAK SLLGLLKEVS PLHIEALFWK VASEKSIYVE 180 YANDVPGSGF GEPEGQFRYF HRRRRKRMSY RRENSECRKD EIDAVNNSQM VEINNTSVKS 240 DPDTRVETPK SSTTLSAIAS DVNSHSKRKS GNASNDMEGT AGWKLSNSPW NLQVIARSAG 300 SLTRFMPDDI PGVTSPMVYI GMLFSWFAWH VEDHELHSMN FLHTGSSKTW YAVPGDHAFA 360 FEEVIRAEAY GGNIDRLAAL SLLGEKTTLL SPELIVASGI PCCRLIQNPG EFVVTFPRAY 420 HVGFSHGFNC GEAANFGTPQ WLQVAKDAAV RRAAMNYLPM LSHQQLLYLL TMSFMSRVPR 480 SLLPGARSSR LRDRLKEERE VLVKKAFVED LLTENKLLSL LLKRGSTYRA IMWDPLLLPY 540 TSRDSELPSR TATDSTIMQE NVSDIHGEDK SDQKNLLDEM CFYMENLNYL YSNDDDLTCD 600 FQVDSGTLVC VACGILGYPF MSVVQPSEGA AMEFLPVDHL SSQGPTVLVP KNAHSCPIEG 660 SVSDNLNHVL DLSLPSKQAA LPSITKFSDG WDTSNKYLRP RVFCLEHAVQ VEELLQSKGG 720 AKMLVICHSD YQKIKANAIP VADDIGIPFN YNDVPLDAAS EEDLNLINFA IDDEHDEIQE 780 DWTSKLGVNL RYCVKVRKNS SFKQVQHALP LSGLFTDKYS SLELFNIKWQ SRKSRSKGKL 840 NHPSPSKPCE SVEMKVDEIM MEKLDSDISK YGQKIIQYSR RKKRKSDYST GGGGGVELLK 900 NDLPREDSAA SIQFLDKHGG NKSKINARSE SIQAQLEVPT TSVVQRDQNR IVEETGPDDE 960 AQSLIACASS IKKCENKLME RNSENGEISP AEKCSKFCLV ADGEVYLENT ATATKVCNPV 1020 SEQQSDEPTS RYGLINGNSA SSHSAQRCAG RYNQGLEDIT VPKFSINGGA FSGMTSENEV 1080 QQGTEATSRN NSEVIIRSEV PKVPFAAADS CDGTVSQNKA QKQEIQINAR KEVLLSGSFT 1140 SAGIDHQSTD LSVEEYSTIS KNPGAEEDCH TDVALDVEVL QEIQATKGTG GDEVITCSDL 1200 PILEKQPTPV MMEACSEIQQ DSSSSKKLCV GATADADSHE NDPNRYEKNE ESASCCHTPI 1260 NQTTIPIQKY SRAHRETCAT VNVNDGTDVC SSVENGDLES AMVNCKSNAM GRKRKRELEE 1320 TCQKVGSDGF IRSPCEGLRP RAWKDATSSF DADKASSEGL QTKETRKPST HAHRKIIIET 1380 GSHGCDLEGC HMSFKTKEEL RLHKRNRCPY EGCGKKFRSH KYAVLHQRVH DDDRPLKCPW 1440 KGCSMSFKWA WARTEHIRVH TGVRPYKCKV EGCGLSFRFV SDFSRHRRKT GHYIDS*

Sequence ? help Back to Top

Protein Sequence Length: 1497 aa Download sequence Send to blast

MGNVEIPKWL KRLPLAPEFR PTDTEFADPI AYISKIEKEA GAYGICKIIP PLPKPSKRYV  60
FNNLNRSLSK SPELGSDVNI GSVSNFGDSG GDVRERRAVF TTRHQELGRS GKRMKGVVSS  120
PQCGAQKQVW QSGEIYTLEQ FESKSKTFAK SLLGLLKEVS PLHIEALFWK VASEKSIYVE  180
YANDVPGSGF GEPEGQFRYF HRRRRKRMSY RRENSECRKD EIDAVNNSQM VEINNTSVKS  240
DPDTRVETPK SSTTLSAIAS DVNSHSKRKS GNASNDMEGT AGWKLSNSPW NLQVIARSAG  300
SLTRFMPDDI PGVTSPMVYI GMLFSWFAWH VEDHELHSMN FLHTGSSKTW YAVPGDHAFA  360
FEEVIRAEAY GGNIDRLAAL SLLGEKTTLL SPELIVASGI PCCRLIQNPG EFVVTFPRAY  420
HVGFSHGFNC GEAANFGTPQ WLQVAKDAAV RRAAMNYLPM LSHQQLLYLL TMSFMSRVPR  480
SLLPGARSSR LRDRLKEERE VLVKKAFVED LLTENKLLSL LLKRGSTYRA IMWDPLLLPY  540
TSRDSELPSR TATDSTIMQE NVSDIHGEDK SDQKNLLDEM CFYMENLNYL YSNDDDLTCD  600
FQVDSGTLVC VACGILGYPF MSVVQPSEGA AMEFLPVDHL SSQGPTVLVP KNAHSCPIEG  660
SVSDNLNHVL DLSLPSKQAA LPSITKFSDG WDTSNKYLRP RVFCLEHAVQ VEELLQSKGG  720
AKMLVICHSD YQKIKANAIP VADDIGIPFN YNDVPLDAAS EEDLNLINFA IDDEHDEIQE  780
DWTSKLGVNL RYCVKVRKNS SFKQVQHALP LSGLFTDKYS SLELFNIKWQ SRKSRSKGKL  840
NHPSPSKPCE SVEMKVDEIM MEKLDSDISK YGQKIIQYSR RKKRKSDYST GGGGGVELLK  900
NDLPREDSAA SIQFLDKHGG NKSKINARSE SIQAQLEVPT TSVVQRDQNR IVEETGPDDE  960
AQSLIACASS IKKCENKLME RNSENGEISP AEKCSKFCLV ADGEVYLENT ATATKVCNPV  1020
SEQQSDEPTS RYGLINGNSA SSHSAQRCAG RYNQGLEDIT VPKFSINGGA FSGMTSENEV  1080
QQGTEATSRN NSEVIIRSEV PKVPFAAADS CDGTVSQNKA QKQEIQINAR KEVLLSGSFT  1140
SAGIDHQSTD LSVEEYSTIS KNPGAEEDCH TDVALDVEVL QEIQATKGTG GDEVITCSDL  1200
PILEKQPTPV MMEACSEIQQ DSSSSKKLCV GATADADSHE NDPNRYEKNE ESASCCHTPI  1260
NQTTIPIQKY SRAHRETCAT VNVNDGTDVC SSVENGDLES AMVNCKSNAM GRKRKRELEE  1320
TCQKVGSDGF IRSPCEGLRP RAWKDATSSF DADKASSEGL QTKETRKPST HAHRKIIIET  1380
GSHGCDLEGC HMSFKTKEEL RLHKRNRCPY EGCGKKFRSH KYAVLHQRVH DDDRPLKCPW  1440
KGCSMSFKWA WARTEHIRVH TGVRPYKCKV EGCGLSFRFV SDFSRHRRKT GHYIDS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ip0_A	4e-55	267	565	137	461	Transcription factor jumonji (Jmj) family protein
6ip4_A	4e-55	267	565	137	461	Arabidopsis JMJ13
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed at low levels in cotyledons and leaves. Detected in inflorescences, stems, roots and siliques but not in shoot apical meristems or root tips. {ECO:0000269\|PubMed:15377760, ECO:0000269\|PubMed:18713399}.

Functional Description ? help Back to Top
Source	Description
UniProt	Acts probably as a histone 'Lys-4' (H3K4me) demethylase. Involved in transcriptional gene regulation. Acts as a repressor of the photoperiodic flowering pathway and of FT. Binds around the transcription start site of the FT locus. {ECO:0000269\|PubMed:15377760, ECO:0000269\|PubMed:18467490, ECO:0000269\|PubMed:19946624}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012447777.1	0.0	PREDICTED: probable lysine-specific demethylase ELF6
Swissprot	Q6BDA0	0.0	ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBL	A0A0D2TY86	0.0	A0A0D2TY86_GOSRA; Uncharacterized protein
STRING	Gorai.009G313100.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM11520	27	31

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G04240.1	0.0	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Gorai.009G313100.1
Entrez Gene	105770944

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] Heidari B,Nemie-Feyissa D,Kangasjärvi S,Lillo C Antagonistic regulation of flowering time through distinct regulatory subunits of protein phosphatase 2A. PLoS ONE, 2013. 8(7): p. e67987 [PMID:23976921] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Crevillén P, et al. Epigenetic reprogramming that prevents transgenerational inheritance of the vernalized state. Nature, 2014. 515(7528): p. 587-90 [PMID:25219852] Yang H,Howard M,Dean C Physical coupling of activation and derepression activities to maintain an active transcriptional state at FLC. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(33): p. 9369-74 [PMID:27482092]