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

Rsa1.0_01630.1_g00005.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

YABBY

Protein Properties

Length: 230aa MW: 25867.2 Da PI: 6.0878

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_01630.1_g00005.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	249	8.4e-77	9	181	2	169
YABBY 2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakas....qllaaeshldeslkeelle.elkveeenl 82 ++f+ ++q+C+vqC+fC+til+vsvP+tsl++vvtvrCGhCtsllsvnl+kas +ll++ shlde+ kee+++ +++veee++ Rsa1.0_01630.1_g00005.1 9 QLFDLPGQICHVQCGFCTTILLVSVPFTSLSMVVTVRCGHCTSLLSVNLMKASfiplHLLSSLSHLDETEKEEVAAtTDGVEEETW 94 78999********************************************9999999**********976516789* PP YABBY 83 ksnvekeesastsvsseklsenedeevprvpp.virPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPkih 167 k+n+eke+s++t v+s+ +e+ed++v+rv++ v++PPekrqr+Psayn+fikeei+r+ka+nP ++h+eafs+aaknWahfP++ Rsa1.0_01630.1_g00005.1 95 KVNQEKENSPTTLVTSSD-NEDEDKDVSRVYQvVNKPPEKRQRAPSAYNCFIKEEIKRLKAQNPGMAHKEAFSLAAKNWAHFPPVQ 179 *********99977.9999*****899***********************************************98 PP YABBY 168 fg 169 ++ Rsa1.0_01630.1_g00005.1 180 NK 181 87 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	1.7E-60	14	180	IPR006780	YABBY protein
SuperFamily	SSF47095	1.57E-9	122	177	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	5.4E-6	128	178	IPR009071	High mobility group box domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009944	Biological Process	polarity specification of adaxial/abaxial axis
GO:0048481	Biological Process	plant ovule development
GO:0005634	Cellular Component	nucleus

Sequence ? help Back to Top
Protein Sequence Length: 230 aa Download sequence Send to blast
MPNMTTLNQL FDLPGQICHV QCGFCTTILL VSVPFTSLSM VVTVRCGHCT SLLSVNLMKA 60 SFIPLHLLSS LSHLDETEKE EVAATTDGVE EETWKVNQEK ENSPTTLVTS SDNEDEDKDV 120 SRVYQVVNKP PEKRQRAPSA YNCFIKEEIK RLKAQNPGMA HKEAFSLAAK NWAHFPPVQN 180 KRAASDQCFC EEDNNVLLSC NALQDHEVSN NGFRERKAQR HSIWGKSPFE

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	Rsa1.0_01630.1_g00005.1

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_018438612.1	1e-173	PREDICTED: axial regulator YABBY 4
Swissprot	Q9LDT3	1e-146	YAB4_ARATH; Axial regulator YABBY 4
TrEMBL	A0A3P5YGQ6	1e-157	A0A3P5YGQ6_BRACM; Uncharacterized protein
STRING	A0A087HQN1	1e-157	(Arabis alpina)

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-148	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]