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_009110891.1

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: 188aa MW: 21205 Da PI: 9.846

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009110891.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	254	2.6e-78	2	164	2	170
YABBY 2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkeelleelkveeenlksnvekeesastsv 96 +++ ss++vCyv+CnfC+tilavsvP++s+f++vtvrCGhCt+lls+n+ ++ ++ + + +++l++++++ +++++ ++ ++s s+++ XP_009110891.1 2 SIDLSSDRVCYVHCNFCTTILAVSVPYASMFTLVTVRCGHCTNLLSLNIGVSLHQSPPTPI-----HQDLQQHKQQITTSITRKEYGSSSRSSNH 91 67789*********************************************999998873.....44555555555566666666666666666 PP YABBY 97 sseklsenedeevprvppvirPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPkihfgl 170 s++lsen d+e+pr+pp irPPekrqrvPsaynrfikeeiqrika+nP+ishreafs+aaknWahfP+ihfgl XP_009110891.1 92 FSTTLSENVDREAPRMPP-IRPPEKRQRVPSAYNRFIKEEIQRIKAGNPEISHREAFSTAAKNWAHFPHIHFGL 164 66678*******99.9**************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	3.5E-73	6	164	IPR006780	YABBY protein
SuperFamily	SSF47095	1.14E-7	109	157	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	1.3E-4	112	158	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: 188 aa Download sequence Send to blast
MSIDLSSDRV CYVHCNFCTT ILAVSVPYAS MFTLVTVRCG HCTNLLSLNI GVSLHQSPPT 60 PIHQDLQQHK QQITTSITRK EYGSSSRSSN HFSTTLSENV DREAPRMPPI RPPEKRQRVP 120 SAYNRFIKEE IQRIKAGNPE ISHREAFSTA AKNWAHFPHI HFGLKLDGNK KGKQLDQTVA 180 GQKSNGYY

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_009110891.1

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_009110891.1	1e-141	PREDICTED: putative axial regulator YABBY 2 isoform X1
Refseq	XP_013655318.1	1e-141	putative axial regulator YABBY 2 isoform X1
Refseq	XP_013657611.1	1e-141	putative axial regulator YABBY 2 isoform X1
Swissprot	Q9XFB0	1e-119	YAB2_ARATH; Putative axial regulator YABBY 2
TrEMBL	A0A397YFU6	1e-140	A0A397YFU6_BRACM; Uncharacterized protein
STRING	Bo5g009010.1	1e-131	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5581	27	49

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G08465.1	1e-114	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]