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

XP_009142679.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

HRT-like

Protein Properties

Length: 452aa MW: 50698.8 Da PI: 8.9888

Description

HRT-like family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009142679.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HRT-like	54.7	1.7e-17	264	294	1	31
HRT-like 1 iCGviledGsvCkrqPvkgRKRCeeHKGmRi 31 +CGv+le+G +C+r+PvkgRKRC eHKG+Ri XP_009142679.1 264 VCGVLLENGDCCSRSPVKGRKRCLEHKGQRI 294 7*****************************7 PP
2	HRT-like	50.7	3e-16	321	351	1	31
HRT-like 1 iCGviledGsvCkrqPvkgRKRCeeHKGmRi 31 +CGvil + +C++ Pv+gRKRCe HKGmRi XP_009142679.1 321 TCGVILPNMEPCSKRPVPGRKRCEDHKGMRI 351 7*****************************7 PP
3	HRT-like	29.6	1.2e-09	377	404	2	29
HRT-like 2 CGviledGsvCkrqPvkgRKRCeeHKGm 29 C +++++G +C+r+ kg KRC++HK++ XP_009142679.1 377 CEATTKNGVPCTRSSPKGSKRCWQHKDK 404 99************************85 PP
4	HRT-like	58.4	1.2e-18	418	448	1	31
HRT-like 1 iCGviledGsvCkrqPvkgRKRCeeHKGmRi 31 +CGv+ dG vC+r+PvkgRKRCeeHKGmR+ XP_009142679.1 418 TCGVKVFDGLVCERSPVKGRKRCEEHKGMRV 448 7*****************************7 PP

Sequence ? help Back to Top
Protein Sequence Length: 452 aa Download sequence Send to blast
MGMDFGNGLS FAAIVPTVYK REDYKRTKHD AVFSNWKVLI GSEDWEDFKK GKDGVGRYRV 60 QNLPRKSCPG LYELGVAVID QARKLDSDDV LAAYLGQAES VRSRLQSYGR SGAHLRTVNN 120 NNLDGCCESP PDKKAGLFED IFMKHGSVVY RWAPMGSKRE AEATEGMLLS TFDYAWNKGS 180 NGERRHLDLL NKLGDLEFIS NRESGVSRVL FPFLRNQERN LSCDVVVGEE EKSTSTKLSR 240 SRPQPVSDKS DEIFSGGSCC SDSVCGVLLE NGDCCSRSPV KGRKRCLEHK GQRICRVSPV 300 KPHPETFITR RQDYNTDVVT TCGVILPNME PCSKRPVPGR KRCEDHKGMR INAFLFLLNR 360 TDREKTVKEE ASKPSFCEAT TKNGVPCTRS SPKGSKRCWQ HKDKENIHPV VAAETQVTCG 420 VKVFDGLVCE RSPVKGRKRC EEHKGMRVII MT

Sequence ? help Back to Top

Protein Sequence Length: 452 aa Download sequence Send to blast

MGMDFGNGLS FAAIVPTVYK REDYKRTKHD AVFSNWKVLI GSEDWEDFKK GKDGVGRYRV  60
QNLPRKSCPG LYELGVAVID QARKLDSDDV LAAYLGQAES VRSRLQSYGR SGAHLRTVNN  120
NNLDGCCESP PDKKAGLFED IFMKHGSVVY RWAPMGSKRE AEATEGMLLS TFDYAWNKGS  180
NGERRHLDLL NKLGDLEFIS NRESGVSRVL FPFLRNQERN LSCDVVVGEE EKSTSTKLSR  240
SRPQPVSDKS DEIFSGGSCC SDSVCGVLLE NGDCCSRSPV KGRKRCLEHK GQRICRVSPV  300
KPHPETFITR RQDYNTDVVT TCGVILPNME PCSKRPVPGR KRCEDHKGMR INAFLFLLNR  360
TDREKTVKEE ASKPSFCEAT TKNGVPCTRS SPKGSKRCWQ HKDKENIHPV VAAETQVTCG  420
VKVFDGLVCE RSPVKGRKRC EEHKGMRVII MT

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: During embryogenesis, expressed in the embryo at the late torpedo/cotyledon stage, at the onset of maturation. Not expressed during early stages of seed development or in mature seeds. {ECO:0000269\|PubMed:22226340}.
Uniprot	TISSUE SPECIFICITY: Expressed in vascular tissues of stems, hypocotyls, leaves and flowers. Expressed in the vascular bundles of xylem in shoot parenchyma cells. Expressed in the remnant cytoplasm of differentiated fiber cells and in protoxylem element of parenchymal cells. {ECO:0000269\|PubMed:17991462}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional regulator involved in the regulation of cell differentiation in meristems. Probably regulates the expression of various KNAT genes involved in the maintenance of the cells in an undifferentiated, merismastic state. Plays a role in the regulation of gibberellin 20 oxidase and the gibberellin-regulated protein GASA4. Localizes in the nucleus during the cellular differentiation state and may act via a single strand cutting domain (PubMed:17991462). Transcriptional regulator required for the induction of dormancy during late seed development. Interacts genetically with FUS3 and may be component of the same regulatory pathway during embryogenesis. Binds both linear and supercoiled DNA without sequence preference (PubMed:22226340). {ECO:0000269\|PubMed:17991462, ECO:0000269\|PubMed:22226340}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009142679.1

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	AB013392	7e-51	AB013392.1 Arabidopsis thaliana genomic DNA, chromosome 5, P1 clone:MIK19.
GenBank	CP002688	7e-51	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009142679.1	0.0	PREDICTED: protein EFFECTOR OF TRANSCRIPTION 2-like
Swissprot	F4K933	0.0	ET2_ARATH; Protein EFFECTOR OF TRANSCRIPTION 2
TrEMBL	M4CK25	0.0	M4CK25_BRARP; Uncharacterized protein
STRING	Bra004559.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2954	27	63

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G56780.1	0.0	effector of transcription2