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_013597001.1

Organism

Brassica oleracea

Taxonomic ID

3712

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: 232aa MW: 26116.4 Da PI: 5.3523

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013597001.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	248.7	1.1e-76	9	183	2	169
YABBY 2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakas....qllaaeshldeslkeelle.elkveeenlksnvekees 91 ++f+ ++q+C+vqC+fC+til+vsvP+tsl++vvtvrCGhCtsllsvnl+kas +ll++ shlde+ k+e+++ +++veee++k++ eke+s XP_013597001.1 9 QLFDLPGQICHVQCGFCTTILLVSVPFTSLSMVVTVRCGHCTSLLSVNLMKASfiplHLLTSLSHLDETEKDEVAAtTDGVEEEAWKVTLEKENS 103 78999********************************************9999999*********9976516789*********9 PP YABBY 92 astsvss.eklsenedeevprvpp.virPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPkihfg 169 ++t v+s + +e+ed++v+rv++ v++PPekrqr+Psayn+fikeei+r+ka+nP+++h+eafs+aaknWahfP++ ++ XP_013597001.1 104 PTTLVTSsDNEDEDEDKDVSRVYQvVNKPPEKRQRAPSAYNCFIKEEIRRLKAQNPSMAHKEAFSLAAKNWAHFPPVQNK 183 999876515569999*****899***********************************************9887 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	3.2E-60	14	182	IPR006780	YABBY protein
SuperFamily	SSF47095	4.84E-9	124	179	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	5.6E-6	130	180	IPR009071	High mobility group box domain
CDD	cd00084	0.00198	138	174	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: 232 aa Download sequence Send to blast
MANMTTLNQL FDLPGQICHV QCGFCTTILL VSVPFTSLSM VVTVRCGHCT SLLSVNLMKA 60 SFIPLHLLTS LSHLDETEKD EVAATTDGVE EEAWKVTLEK ENSPTTLVTS SDNEDEDEDK 120 DVSRVYQVVN KPPEKRQRAP SAYNCFIKEE IRRLKAQNPS MAHKEAFSLA AKNWAHFPPV 180 QNKRTASDQC FCEEDNNVLL SCNALEDHEV SNNGFRERKA QRHSIWGKSP FE

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	XP_013597001.1

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	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.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013597001.1	1e-175	PREDICTED: axial regulator YABBY 4 isoform X2
Swissprot	Q9LDT3	1e-144	YAB4_ARATH; Axial regulator YABBY 4
TrEMBL	A0A0D3D747	1e-173	A0A0D3D747_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6EBE6	1e-173	A0A3P6EBE6_BRAOL; Uncharacterized protein
STRING	Bo7g056180.1	1e-174	(Brassica oleracea)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G23420.1	1e-140	YABBY family protein

Publications ? help Back to Top
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]