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.005G122500.2

Common Name

B456_005G122500, LOC105793950

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

C3H

Protein Properties

Length: 858aa MW: 95521.3 Da PI: 7.8445

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.005G122500.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	22.9	1.5e-07	169	190	3	25
S---SGGGGTS--TTTTT-SS-S CS zf-CCCH 3 telCrffartGtCkyGdrCkFaH 25 t +C+ f++ G C++G+ C+F H Gorai.005G122500.2 169 TQICKKFMA-GRCRRGSLCHFLH 190 789****.*********** PP
2	zf-CCCH	20.1	1.1e-06	295	315	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 +C++f+ G C+ G+ C+F+H+ Gorai.005G122500.2 295 PCKYFST-GNCHNGNYCRFSHP 315 7****.***********8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	13.779	166	193	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.6E-4	166	192	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	8.3E-7	169	191	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.4E-5	169	190	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.746	226	253	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.023	226	252	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.727	290	317	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0019	290	316	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.31E-5	295	320	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 858 aa Download sequence Send to blast
MLRTIVEMSK SRKRSSKWDL KEEHQYSLEN VQDSAWFANA CDRESEHGSF SPEFGRNGNK 60 WSAIKSKHGL PSKEYLHGSK CGENNSDCAT NWKTTTPCDG DETYSMKKSP TLNDRRQQNC 120 HHSLKSDWSR SQRSRSRSRS RSRSRSPIDG IGRQPGFLEM TRNGSGVSTQ ICKKFMAGRC 180 RRGSLCHFLH QDIQSHEDGS DNRQKRASVS KYITCNEDKY YLIESGRSTD CCTDYRKGNC 240 RRGASCRSAH DGVSDGFSKG SINEISRERE NNKRNKLTSP EQDVEREARK SSSIPCKYFS 300 TGNCHNGNYC RFSHPASTEC DRGQWGRSSV SSDMLLDGAE LTDIDASFNV DKYGNASNGS 360 DADVSNESEI PWTGPKWSAA DASIDLHNSR ASSKQSDISV YLGASKLNKD TNEFSSCNID 420 ERWQHGYDAC GKNSESNVHC KRIDIDKEDL KKIENVGVNT GVSEPKGAEE SIVAMEMSPM 480 WNCRLHSSVD KEKSHSSEPT PVGTSLRAHG KNIIEKASGH AHDEHAASQL MSIEESNFHL 540 DHMTRGSSCA VLRSFDHPGP SSSSLPYSNL NTVRQSELSF PSNEVNVKVP QNNLLLQEEK 600 PSNKLNIGDT NILHGNYGFP STQNMVTFAN SRGPVESGQE IIFPEQYNPR SDSIDPAKKQ 660 DTNTEPLGFS VHPVSQESTA DGKLELSAKN FLPSSLVGGR NGSDYHNDHS SKRDSDFDSH 720 KPNQLEPIAS FELTKENGGI VQTKKAEAEN KNGLSENTDA DDRTEEGKKS KDVKGVRAFK 780 FALVEFVKDL LKPTWKEGQI GKEAYKSIVR KVVDKVTATM QGTNIPRTPE KIDQYLSFSK 840 PKLSKLVHAY VEKFQKS*

Sequence ? help Back to Top

Protein Sequence Length: 858 aa Download sequence Send to blast

MLRTIVEMSK SRKRSSKWDL KEEHQYSLEN VQDSAWFANA CDRESEHGSF SPEFGRNGNK  60
WSAIKSKHGL PSKEYLHGSK CGENNSDCAT NWKTTTPCDG DETYSMKKSP TLNDRRQQNC  120
HHSLKSDWSR SQRSRSRSRS RSRSRSPIDG IGRQPGFLEM TRNGSGVSTQ ICKKFMAGRC  180
RRGSLCHFLH QDIQSHEDGS DNRQKRASVS KYITCNEDKY YLIESGRSTD CCTDYRKGNC  240
RRGASCRSAH DGVSDGFSKG SINEISRERE NNKRNKLTSP EQDVEREARK SSSIPCKYFS  300
TGNCHNGNYC RFSHPASTEC DRGQWGRSSV SSDMLLDGAE LTDIDASFNV DKYGNASNGS  360
DADVSNESEI PWTGPKWSAA DASIDLHNSR ASSKQSDISV YLGASKLNKD TNEFSSCNID  420
ERWQHGYDAC GKNSESNVHC KRIDIDKEDL KKIENVGVNT GVSEPKGAEE SIVAMEMSPM  480
WNCRLHSSVD KEKSHSSEPT PVGTSLRAHG KNIIEKASGH AHDEHAASQL MSIEESNFHL  540
DHMTRGSSCA VLRSFDHPGP SSSSLPYSNL NTVRQSELSF PSNEVNVKVP QNNLLLQEEK  600
PSNKLNIGDT NILHGNYGFP STQNMVTFAN SRGPVESGQE IIFPEQYNPR SDSIDPAKKQ  660
DTNTEPLGFS VHPVSQESTA DGKLELSAKN FLPSSLVGGR NGSDYHNDHS SKRDSDFDSH  720
KPNQLEPIAS FELTKENGGI VQTKKAEAEN KNGLSENTDA DDRTEEGKKS KDVKGVRAFK  780
FALVEFVKDL LKPTWKEGQI GKEAYKSIVR KVVDKVTATM QGTNIPRTPE KIDQYLSFSK  840
PKLSKLVHAY VEKFQKS*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	134	144	RSRSRSRSRSR
2	136	144	RSRSRSRSR

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_012478323.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 38-like
TrEMBL	A0A0D2RJW6	0.0	A0A0D2RJW6_GOSRA; Uncharacterized protein
STRING	Gorai.005G122500.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM15764	9	12

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G33835.1	9e-17	C3H family protein

Link Out ? help Back to Top
Phytozome	Gorai.005G122500.2
Entrez Gene	105793950

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]