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

GSBRNA2T00019352001

Common Name

GSBRNA2T00019352001, LOC106377031

Organism

Brassica napus

Taxonomic ID

3708

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: 189aa MW: 21007.8 Da PI: 9.9798

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00019352001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	244.5	2.1e-75	2	164	2	170
YABBY 2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkeelleelkveeenlksnvekee. 90 +++ ss++vCyv CnfC+t lavsvP++slf++vtvrCGhCt+lls+n+ ++ ++ + ++++l++ +++++s v+++e GSBRNA2T00019352001 2 SIDLSSDRVCYVLCNFCTTTLAVSVPYASLFTLVTVRCGHCTNLLSLNIGVSLHQSSPPP---------IHQDLQQPKQHITSSVTRKEw 82 67789*******************************************9988766555.........445555555555554444440 PP YABBY 91 ...sastsvsseklsenedeevprvppvirPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPkihfgl 170 s s+++ s++lsen d+e+pr+pp irPPekrqrvPsaynrfikeeiqrika+nP ishreafs+aaknWahfP+ihfgl GSBRNA2T00019352001 83 gssSRSSNHFSTTLSENVDQEAPRMPP-IRPPEKRQRVPSAYNRFIKEEIQRIKAGNPAISHREAFSTAAKNWAHFPHIHFGL 164 000444455555679******99.9**************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	2.1E-70	6	164	IPR006780	YABBY protein
SuperFamily	SSF47095	3.4E-7	109	157	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	3.9E-4	113	156	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: 189 aa Download sequence Send to blast
MSIDLSSDRV CYVLCNFCTT TLAVSVPYAS LFTLVTVRCG HCTNLLSLNI GVSLHQSSPP 60 PIHQDLQQPK QHITSSVTRK EWGSSSRSSN HFSTTLSENV DQEAPRMPPI RPPEKRQRVP 120 SAYNRFIKEE IQRIKAGNPA ISHREAFSTA AKNWAHFPHI HFGLKLDGNK KGKQLDQTVA 180 GHKSNGYF*

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	GSBRNA2T00019352001

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_013672636.1	1e-140	putative axial regulator YABBY 2 isoform X1
Swissprot	Q9XFB0	1e-116	YAB2_ARATH; Putative axial regulator YABBY 2
TrEMBL	A0A078GBE0	1e-139	A0A078GBE0_BRANA; BnaC08g43150D protein
STRING	Bo8g112450.1	1e-139	(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-112	YABBY family protein

Link Out ? help Back to Top
Entrez Gene	106377031

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] 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]