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_02811.1_g00007.1

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: 233aa MW: 26237.5 Da PI: 5.8941

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_02811.1_g00007.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	240.1	4.8e-74	12	184	2	169
YABBY 2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakas....qllaaeshldeslkeelle.elkveeenl 82 ++f+ ++q+C+vqC+fC+til+vsvP tsl++vvtvrCGhCtsllsvnl+kas +ll++ shlde++k+e+++ +++veee++ Rsa1.0_02811.1_g00007.1 12 QLFDLPGQICHVQCGFCTTILLVSVPLTSLSMVVTVRCGHCTSLLSVNLMKASyiplHLLTSLSHLDEAGKQEVAAtTDGVEEETW 97 78999********************************************9989999*********99765167899 PP YABBY 83 ksnvekeesastsvsseklsenedeevprvpp.virPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPkih 167 k+n+ +e+s +t v+s+ +e+ed +v+rv++ v++PPekrqr+Psayn+fikeei+r+ka+nP+++h+eafs+aaknWa fP++ Rsa1.0_02811.1_g00007.1 98 KVNQDQETSRTTLVTSSD-NEDEDTDVSRVYQvVNKPPEKRQRAPSAYNCFIKEEIKRLKAQNPSMTHKEAFSLAAKNWANFPPVQ 182 **999999999977.899999***899***********************************************98 PP YABBY 168 fg 169 ++ Rsa1.0_02811.1_g00007.1 183 NK 184 87 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	1.4E-59	17	183	IPR006780	YABBY protein
SuperFamily	SSF47095	2.23E-10	124	182	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	8.4E-7	131	182	IPR009071	High mobility group box domain
CDD	cd00084	3.97E-5	139	194	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: 233 aa Download sequence Send to blast
MTKIPNMTTL NQLFDLPGQI CHVQCGFCTT ILLVSVPLTS LSMVVTVRCG HCTSLLSVNL 60 MKASYIPLHL LTSLSHLDEA GKQEVAATTD GVEEETWKVN QDQETSRTTL VTSSDNEDED 120 TDVSRVYQVV NKPPEKRQRA PSAYNCFIKE EIKRLKAQNP SMTHKEAFSL AAKNWANFPP 180 VQNKRAASDQ FFYEDDNNAL LSCNALEDHE ESNNGFRERK AQRHSIWGKS PFE

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_02811.1_g00007.1

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_018488238.1	1e-173	PREDICTED: axial regulator YABBY 4
Swissprot	Q9LDT3	1e-142	YAB4_ARATH; Axial regulator YABBY 4
TrEMBL	A0A3P5YGQ6	1e-159	A0A3P5YGQ6_BRACM; Uncharacterized protein
STRING	Bra024599.1-P	1e-154	(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-145	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]