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_009110892.1

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

YABBY

Protein Properties

Length: 187aa MW: 21076.9 Da PI: 9.846

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009110892.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	251.7	1.2e-77	2	163	2	170
YABBY 2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkeelleelkveeenlksnvekeesastsv 96 +++ ss++vCyv+CnfC+tilavsvP++s+f++vtvrCGhCt+lls+n+ ++ ++ + + +++l+++++ +++ +++ + + +s s+++ XP_009110892.1 2 SIDLSSDRVCYVHCNFCTTILAVSVPYASMFTLVTVRCGHCTNLLSLNIGVSLHQSPPTPI-----HQDLQHKQQITTSITRKEYGS-SSRSSNH 90 67789*********************************************999998873.....444555555554444444444.4444455 PP YABBY 97 sseklsenedeevprvppvirPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPkihfgl 170 s++lsen d+e+pr+pp irPPekrqrvPsaynrfikeeiqrika+nP+ishreafs+aaknWahfP+ihfgl XP_009110892.1 91 FSTTLSENVDREAPRMPP-IRPPEKRQRVPSAYNRFIKEEIQRIKAGNPEISHREAFSTAAKNWAHFPHIHFGL 163 55589*******99.9**************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	2.2E-73	6	163	IPR006780	YABBY protein
SuperFamily	SSF47095	1.13E-7	108	156	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	1.3E-4	111	157	IPR009071	High mobility group box domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0007275	Biological Process	multicellular organism development

Sequence ? help Back to Top
Protein Sequence Length: 187 aa Download sequence Send to blast
MSIDLSSDRV CYVHCNFCTT ILAVSVPYAS MFTLVTVRCG HCTNLLSLNI GVSLHQSPPT 60 PIHQDLQHKQ QITTSITRKE YGSSSRSSNH FSTTLSENVD REAPRMPPIR PPEKRQRVPS 120 AYNRFIKEEI QRIKAGNPEI SHREAFSTAA KNWAHFPHIH FGLKLDGNKK GKQLDQTVAG 180 QKSNGYY

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.23072	0.0	leaf\| seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in subepidermal cells of anlagen regions, then in abaxial part of primordia and finally in differentiating organs. Levels decrease in differentiated organs. In embryo, expressed from the heart stage in the abaxial domain of the cotyledon primordia and decrease as the embryo matures. In stamen, expression restricted to the abaxial region differentiating into the connective. In gynoecium, expressed in the abaxial cell layers differentiating into the valves. {ECO:0000269\|PubMed:10457020}.
Uniprot	TISSUE SPECIFICITY: Expressed at low levels in abaxial regions of lateral aerial organ primordia leading to cotyledons, leaves, flower meristems, sepals, petals, stamen and carpels, but not in roots. {ECO:0000269\|PubMed:10457020}.

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in the abaxial cell fate determination during embryogenesis and organogenesis. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009110892.1

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	AK353326	0.0	AK353326.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-29-D23.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009110892.1	1e-140	PREDICTED: putative axial regulator YABBY 2 isoform X2
Refseq	XP_013655319.1	1e-140	putative axial regulator YABBY 2 isoform X2
Refseq	XP_013657612.1	1e-140	putative axial regulator YABBY 2 isoform X2
Swissprot	Q9XFB0	1e-117	YAB2_ARATH; Putative axial regulator YABBY 2
TrEMBL	A0A397YFK1	1e-139	A0A397YFK1_BRACM; Uncharacterized protein
STRING	Bo8g055830.1	1e-130	(Brassica oleracea)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G08465.1	1e-113	YABBY family protein

Publications ? help Back to Top
Sacharowski SP, et al. SWP73 Subunits of Arabidopsis SWI/SNF Chromatin Remodeling Complexes Play Distinct Roles in Leaf and Flower Development. Plant Cell, 2015. 27(7): p. 1889-906 [PMID:26106148]