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

Glyma.13G217000.1.p

Common Name

GLYMA_13G217000, LOC100782445

Organism

Glycine max

Taxonomic ID

3847

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja

Family

C3H

Protein Properties

Length: 492aa MW: 51398.5 Da PI: 8.0012

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Glyma.13G217000.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	36.5	7.9e-12	51	76	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 +++ C +++rtG+C +G+rC+F+H++ Glyma.13G217000.1.p 51 DEVDCTYYLRTGFCGFGSRCRFNHPR 76 6789********************96 PP
2	zf-CCCH	35.3	2e-11	97	121	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 ++ C++f+rt tCk+G++Ck++H++ Glyma.13G217000.1.p 97 QPVCQYFMRTRTCKFGSSCKYHHPR 121 689********************96 PP
3	zf-CCCH	35.9	1.3e-11	145	169	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C+++ +tG+Ck+G++CkF+H+ Glyma.13G217000.1.p 145 GEKECSYYVKTGQCKFGATCKFHHP 169 6789********************9 PP
4	zf-CCCH	31.9	2.3e-10	363	386	4	27
---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHgp 27 + C ++a+ G Ck+G+ CkF H++ Glyma.13G217000.1.p 363 PACTHYAQHGVCKFGSACKFDHPM 386 78********************95 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	14.652	49	77	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.9E-5	49	76	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.88E-6	51	77	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.2E-9	51	76	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.4E-5	55	76	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.849	94	122	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.7E-4	94	121	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	6.8E-6	95	121	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.5E-9	97	121	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.9E-4	99	121	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.399	143	171	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.2E-5	143	170	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	5.76E-6	145	170	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.5E-9	145	169	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.7E-4	149	168	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.014	359	387	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.5E-5	359	386	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	8.0E-8	362	386	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.44E-5	363	388	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: 492 aa Download sequence Send to blast
MEQYGRSSEG SRSDPSPEWA EPEAQTGLEE PVWQLGMGGG AGEESYPQRP DEVDCTYYLR 60 TGFCGFGSRC RFNHPRDRAV VAGAERTAGE HPERVGQPVC QYFMRTRTCK FGSSCKYHHP 120 RQAGAGGAAA TPVSLNYYGY PLRQGEKECS YYVKTGQCKF GATCKFHHPV PAGIQIPPSP 180 FAPVSPLPVP VPSPLYSTMQ PPPGPSSQQI GVLVARPPML PGSLVQSPYG PVVLSPAMVP 240 ISGWGPYQAS ASGAVLPSGT PSNVGSAQLY GITQLPSPAA AYPGPYPPSG SPVGPPSSSQ 300 KEQAFPERSN QPEYQYYLKT GEVKFGPSYR YNPPPDMSVP DMSTPKANVI LSPAGLPLRP 360 GAPACTHYAQ HGVCKFGSAC KFDHPMGSMS YSPSASSLAD MPVAPYPVGS TIATLAPSSS 420 SSELRPEPSS GSSKESVPSR MPSSTLTGSI GSTLSTGGPI SQSSTQPPSQ SSGPLAAVTS 480 TTSSNVSHTS S*

Sequence ? help Back to Top

Protein Sequence Length: 492 aa Download sequence Send to blast

MEQYGRSSEG SRSDPSPEWA EPEAQTGLEE PVWQLGMGGG AGEESYPQRP DEVDCTYYLR  60
TGFCGFGSRC RFNHPRDRAV VAGAERTAGE HPERVGQPVC QYFMRTRTCK FGSSCKYHHP  120
RQAGAGGAAA TPVSLNYYGY PLRQGEKECS YYVKTGQCKF GATCKFHHPV PAGIQIPPSP  180
FAPVSPLPVP VPSPLYSTMQ PPPGPSSQQI GVLVARPPML PGSLVQSPYG PVVLSPAMVP  240
ISGWGPYQAS ASGAVLPSGT PSNVGSAQLY GITQLPSPAA AYPGPYPPSG SPVGPPSSSQ  300
KEQAFPERSN QPEYQYYLKT GEVKFGPSYR YNPPPDMSVP DMSTPKANVI LSPAGLPLRP  360
GAPACTHYAQ HGVCKFGSAC KFDHPMGSMS YSPSASSLAD MPVAPYPVGS TIATLAPSSS  420
SSELRPEPSS GSSKESVPSR MPSSTLTGSI GSTLSTGGPI SQSSTQPPSQ SSGPLAAVTS  480
TTSSNVSHTS S*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Glyma.13G217000.1.p

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP015038	1e-125	AP015038.1 Vigna angularis var. angularis DNA, chromosome 5, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_003541660.1	0.0	zinc finger CCCH domain-containing protein 34
Swissprot	Q6NPN3	1e-143	C3H58_ARATH; Zinc finger CCCH domain-containing protein 58
TrEMBL	I1M1E0	0.0	I1M1E0_SOYBN; Uncharacterized protein
STRING	GLYMA13G28820.1	0.0	(Glycine max)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF983	34	117
Representative plant	OGRP2865	11	31

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G06410.1	1e-127	C3H family protein

Link Out ? help Back to Top
Phytozome	Glyma.13G217000.1.p
Entrez Gene	100782445

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546]