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

Carubv10007298m

Common Name

CARUB_v10007298mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella

Family

GRF

Protein Properties

Length: 466aa MW: 51312.7 Da PI: 7.722

Description

GRF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10007298m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRC	75.5	5.7e-24	217	260	2	45
WRC 2 aepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkskee 45 ep+rC+RtDGKkWRCsr+v++++k+CErH h++r rsrk++e+ Carubv10007298m 217 LEPWRCKRTDGKKWRCSRNVIPDQKYCERHTHKSRPRSRKHVES 260 69***************************************997 PP
2	QLQ	51.9	2.4e-18	111	145	2	36
QLQ 2 aFTaaQlqlLksQilAyKyLaanqPvPpeLlqaiq 36 aF++aQ+q+L++Q +yKy++a++PvP+eLl + + Carubv10007298m 111 AFSNAQWQELERQKNIYKYMMASVPVPSELLTPFP 145 8******************************9865 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00951	8.1E-10	110	146	IPR014978	Glutamine-Leucine-Glutamine, QLQ
Pfam	PF08880	3.2E-11	111	143	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51666	18.056	111	146	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51667	24.842	216	260	IPR014977	WRC domain
Pfam	PF08879	1.2E-19	218	259	IPR014977	WRC domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0009941	Cellular Component	chloroplast envelope
GO:0005524	Molecular Function	ATP binding

Sequence ? help Back to Top
Protein Sequence Length: 466 aa Download sequence Send to blast
MATRAERKED YVGGFGFGVV EHSHKDVMVL PHHHYHPSYS SPSSSSLCYC SAGLGDPMFS 60 VSSNQAYTSS HSDMFSLAGS TSASVTLADP FYTLSSSGEI GRSLSENAGA AFSNAQWQEL 120 ERQKNIYKYM MASVPVPSEL LTPFPKSHPS NTNPDGKISL AFTQTTSWRH ISKMFSTYAE 180 HKNLLWSLWM TVTVAVATGG SLQLGIASSA SNNTADLEPW RCKRTDGKKW RCSRNVIPDQ 240 KYCERHTHKS RPRSRKHVES SHQSSNHNDT RNAKNDTSQF TRAYPQFYGQ PVNQVPVLST 300 LPSSTSSYDH HRGLRWFRKE GDAIGTLNPE IHDAVQLKDG SSRELKRGFG YDLNFMQKEP 360 TVDQSFGALQ SLLSLNQTPH NQETRRFVVE GKQDEAMGSS LTLSMAGGSM EEAEETNQHQ 420 WVSHEGPSWL YSTTPGGPLA EALCLGVSNN PSSSTTTSSC SRSSS*

Sequence ? help Back to Top

Protein Sequence Length: 466 aa Download sequence Send to blast

MATRAERKED YVGGFGFGVV EHSHKDVMVL PHHHYHPSYS SPSSSSLCYC SAGLGDPMFS  60
VSSNQAYTSS HSDMFSLAGS TSASVTLADP FYTLSSSGEI GRSLSENAGA AFSNAQWQEL  120
ERQKNIYKYM MASVPVPSEL LTPFPKSHPS NTNPDGKISL AFTQTTSWRH ISKMFSTYAE  180
HKNLLWSLWM TVTVAVATGG SLQLGIASSA SNNTADLEPW RCKRTDGKKW RCSRNVIPDQ  240
KYCERHTHKS RPRSRKHVES SHQSSNHNDT RNAKNDTSQF TRAYPQFYGQ PVNQVPVLST  300
LPSSTSSYDH HRGLRWFRKE GDAIGTLNPE IHDAVQLKDG SSRELKRGFG YDLNFMQKEP  360
TVDQSFGALQ SLLSLNQTPH NQETRRFVVE GKQDEAMGSS LTLSMAGGSM EEAEETNQHQ  420
WVSHEGPSWL YSTTPGGPLA EALCLGVSNN PSSSTTTSSC SRSSS*

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that plays a role in the regulation of cell expansion in leaf and cotyledons tissues. Component of a network formed by miR396, the GRFs and their interacting factors (GIFs) acting in the regulation of meristem function, at least partially through the control of cell proliferation. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10007298m

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: microRNA 396 (miR396a or miR396b) negatively regulates growth-regulating factors (GRF1-4 and GRF7-9). {ECO:0000269\|PubMed:15200956, ECO:0000269\|PubMed:19453503}.

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	AL109619	1e-175	AL109619.1 Arabidopsis thaliana DNA chromosome 4, BAC clone T19F6, partial sequence (ESSA project).
GenBank	AL161561	1e-175	AL161561.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 61.
GenBank	ATAC002343	1e-175	AC002343.1 Arabidopsis thaliana chromosome IV BAC T19F6 genomic sequence, complete sequence.
GenBank	CP002687	1e-175	CP002687.1 Arabidopsis thaliana chromosome 4 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023634790.1	0.0	growth-regulating factor 8
Swissprot	Q9SU44	0.0	GRF8_ARATH; Growth-regulating factor 8
TrEMBL	R0H228	0.0	R0H228_9BRAS; Uncharacterized protein
STRING	XP_006285822.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7836	26	37

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G24150.1	0.0	growth-regulating factor 8

Link Out ? help Back to Top
Phytozome	Carubv10007298m
Entrez Gene	17878332

Publications ? help Back to Top
Cao Y,Han Y,Jin Q,Lin Y,Cai Y Comparative Genomic Analysis of the GRF Genes in Chinese Pear (Pyrus bretschneideri Rehd), Poplar (Populous), Grape (Vitis vinifera), Arabidopsis and Rice (Oryza sativa). Front Plant Sci, 2016. 7: p. 1750 [PMID:27933074]