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

Sobic.006G160800.1.p

Common Name

Sb06g023770, SORBIDRAFT_06g023770

Organism

Sorghum bicolor

Taxonomic ID

4558

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum

Family

YABBY

Protein Properties

Length: 277aa MW: 29170.2 Da PI: 7.4486

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.006G160800.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	182.5	2.3e-56	28	225	7	170
YABBY 7 seqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkee......................... 70 eq+Cyv+C++C+tilav vP +slf++vtvrCGhC++ll vnl+ a ++l + + Sobic.006G160800.1.p 28 QEQICYVHCSYCDTILAVGVPCSSLFQTVTVRCGHCSNLLYVNLRALLLPA-AANQLPPFGGQAllsptsphglldaetmssfqaprsl 115 79**************************************998776433.3344544433335556778888666666666666654 PP YABBY 71 .........lleelkveeenlksnvekeesastsvssekl........................senedeevprvpp.virPPekrqrv 125 vs+ + + + ++p+ ++ ekrqrv Sobic.006G160800.1.p 116 qpstdppsaC------------------------VSTITSinntcgggnsasamssmappppakPALLEPQLPKSAAsGNKTSEKRQRV 180 3333322221........................222111222233333333334446666554444555666655548****** PP YABBY 126 PsaynrfikeeiqrikasnPdishreafsaaaknWahfPkihfgl 170 Psaynrfik+eiqrikasnPdi+hreafsaaaknWahfP+ihfgl Sobic.006G160800.1.p 181 PSAYNRFIKDEIQRIKASNPDITHREAFSAAAKNWAHFPHIHFGL 225 *****************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	7.9E-64	27	225	IPR006780	YABBY protein
SuperFamily	SSF47095	1.44E-7	165	218	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	2.3E-4	175	217	IPR009071	High mobility group box domain
CDD	cd00084	8.78E-5	179	215	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: 277 aa Download sequence Send to blast
MMSSVPETFN LDQQHLVVQQ QQPPPAEQEQ ICYVHCSYCD TILAVGVPCS SLFQTVTVRC 60 GHCSNLLYVN LRALLLPAAA NQLPPFGGQA LLSPTSPHGL LDAETMSSFQ APRSLQPSTD 120 PPSACVSTIT SINNTCGGGN SASAMSSMAP PPPAKPALLE PQLPKSAASG NKTSEKRQRV 180 PSAYNRFIKD EIQRIKASNP DITHREAFSA AAKNWAHFPH IHFGLMPDQG LKKNPMQNQE 240 GAECMLFKDG LYAAAAAAAA AAAAATAASG MGISPF*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in leaf primordia, young leaves, floret meristems, floral organ primordia, stamens and carpels. Does not show polar expression pattern. {ECO:0000269\|PubMed:17216490, ECO:0000269\|PubMed:17351053}.

Functional Description ? help Back to Top
Source	Description
UniProt	May be involved in leaf cell growth and differentiation, rather than abaxial cell fate determination. {ECO:0000250}.
UniProt	May be involved in leaf cell growth and differentiation, rather than abaxial cell fate determination. {ECO:0000269\|PubMed:17351053}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.006G160800.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by WOX3. {ECO:0000269\|PubMed:17351053}.

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	BT035706	0.0	BT035706.1 Zea mays full-length cDNA clone ZM_BFb0078M02 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002448235.1	0.0	protein YABBY 5
Swissprot	Q01JG2	1e-114	YAB5_ORYSI; Protein YABBY 5
Swissprot	Q0JBF0	1e-114	YAB5_ORYSJ; Protein YABBY 5
TrEMBL	C5YCY5	0.0	C5YCY5_SORBI; Uncharacterized protein
STRING	Sb06g023770.1	0.0	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1445	38	121
Representative plant	OGRP17343	2	3

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G45190.1	2e-51	YABBY family protein

Link Out ? help Back to Top
Phytozome	Sobic.006G160800.1.p
Entrez Gene	8083323

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Khanday I, et al. Genome-Wide Targets Regulated by the OsMADS1 Transcription Factor Reveals Its DNA Recognition Properties. Plant Physiol., 2016. 172(1): p. 372-88 [PMID:27457124]