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

GSBRNA2T00079608001

Common Name

GSBRNA2T00079608001, LOC106367620

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: 234aa MW: 26130.4 Da PI: 6.3023

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00079608001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	245.2	1.3e-75	12	184	2	169
YABBY 2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakas....qllaaeshldeslkeelle.elkveeenlksnv 86 ++f+ ++qvC+vqC+fC+til+vsvP+tsl++vvtvrCGhCtsllsvnl+kas +ll++ sh+de+++ee+++ +++veee++k+n+ GSBRNA2T00079608001 12 QLFDLPGQVCHVQCGFCTTILLVSVPFTSLSMVVTVRCGHCTSLLSVNLMKASfiplHLLTSLSHMDEKGHEEVAAtTDGVEEEAWKVNQ 101 78999********************************************9999999*********9976516799***** PP YABBY 87 ekeesastsvsseklsenedeevprvpp.virPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPkihfg 169 eke+s+ t v+s++ se+ed++v+rv++ v++PPekrqr+Psayn+fikeei+r+ka+nP+++h+eafs+aaknWa fP++ ++ GSBRNA2T00079608001 102 EKENSPATLVTSSE-SEDEDRDVSRVYQvVNKPPEKRQRAPSAYNCFIKEEIRRLKAQNPSMAHKEAFSLAAKNWANFPPVQNK 184 ******9987.9********899***********************************************9887 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	1.3E-59	17	183	IPR006780	YABBY protein
SuperFamily	SSF47095	1.44E-9	125	181	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	4.0E-6	131	181	IPR009071	High mobility group box domain
CDD	cd00084	5.63E-4	139	180	No hit	No description

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: 234 aa Download sequence Send to blast
MTKIPNMTTL NQLFDLPGQV CHVQCGFCTT ILLVSVPFTS LSMVVTVRCG HCTSLLSVNL 60 MKASFIPLHL LTSLSHMDEK GHEEVAATTD GVEEEAWKVN QEKENSPATL VTSSESEDED 120 RDVSRVYQVV NKPPEKRQRA PSAYNCFIKE EIRRLKAQNP SMAHKEAFSL AAKNWANFPP 180 VQNKRAASDQ YFCEDDNNAL LSCNALGDHD ESNNGFRERK AQRHSIWGKS PFD*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: First detected in a group of around 15 epidermal cells on the abaxial half of each ovule primordium (chalaza, outer integument initiation sites). Later present in the outer cell layer of the outer integument on the abaxial side of the ovule primordium. Confined to the chalazal end of the integument and disappears after anthesis. Also present in embryos at the globular stage. {ECO:0000269\|PubMed:10601041, ECO:0000269\|PubMed:12183380, ECO:0000269\|PubMed:12183381}.

Functional Description ? help Back to Top
Source	Description
UniProt	Essential for the formation and the abaxial-adaxial asymmetric growth of the ovule outer integument. {ECO:0000269\|PubMed:10601041, ECO:0000269\|PubMed:12183380, ECO:0000269\|PubMed:9093862, ECO:0000269\|PubMed:9118807}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00079608001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Autoinduction down-regulated by SUP in adaxial region of the ovule outer integument. Negatively and spatially regulated by HLL, ANT, BELL1, NZZ/SPL and SUP. {ECO:0000269\|PubMed:10601041, ECO:0000269\|PubMed:12183380, ECO:0000269\|PubMed:12183381}.

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	AB493475	0.0	AB493475.1 Arabidopsis thaliana At1g23420 mRNA for hypothetical protein, partial cds, clone: RAAt1g23420.
GenBank	AF195047	0.0	AF195047.1 Arabidopsis thaliana INNER NO OUTER (INO) mRNA, complete cds.
GenBank	BT026410	0.0	BT026410.1 Arabidopsis thaliana At1g23420 mRNA, complete cds.
GenBank	DQ446281	0.0	DQ446281.1 Arabidopsis thaliana clone pENTR221-At1g23420 inner no outer protein (At1g23420) mRNA, complete cds.
GenBank	DQ652855	0.0	DQ652855.1 Arabidopsis thaliana clone 0000017089_0000011971 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009115528.1	1e-177	PREDICTED: axial regulator YABBY 4
Refseq	XP_013662883.1	1e-177	axial regulator YABBY 4
Swissprot	Q9LDT3	1e-144	YAB4_ARATH; Axial regulator YABBY 4
TrEMBL	A0A078I274	1e-175	A0A078I274_BRANA; BnaA09g31050D protein
STRING	Bra024599.1-P	1e-171	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8044	27	40

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G23420.1	1e-137	YABBY family protein

Link Out ? help Back to Top
Entrez Gene	106367620

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] Lora J,Hormaza JI,Herrero M Transition from two to one integument in Prunus species: expression pattern of INNER NO OUTER (INO), ABERRANT TESTA SHAPE (ATS) and ETTIN (ETT). New Phytol., 2015. 208(2): p. 584-95 [PMID:25991552] Skinner DJ,Brown RH,Kuzoff RK,Gasser CS Conservation of the role of INNER NO OUTER in development of unitegmic ovules of the Solanaceae despite a divergence in protein function. BMC Plant Biol., 2016. 16(1): p. 143 [PMID:27350128] Simon MK,Skinner DJ,Gallagher TL,Gasser CS Integument Development in Arabidopsis Depends on Interaction of YABBY Protein INNER NO OUTER with Coactivators and Corepressors. Genetics, 2017. 207(4): p. 1489-1500 [PMID:28971961]