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.002G039400.2.p

Common Name

Sb02g003390, SORBIDRAFT_02g003390

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: 170aa MW: 18895.2 Da PI: 9.0545

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.002G039400.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	227.7	2.9e-70	2	159	2	170
YABBY 2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkeelleelkveeenlksnvekee 90 + +++se+ Cyv+Cn+Cntil+v+vP+++++++vtv+CGhCt++ls++l+ ++q+ ++ + ++++++++++ +n+ s++++++ Sobic.002G039400.2.p 2 SAQFASEHACYVNCNYCNTILVVNVPNSCSHNIVTVKCGHCTMVLSMDLSPFHQQARTVPD------NQVVQNRGFQYNNFGSYEQASS 84 67899*********************************************987766664......689**********99999 PP YABBY 91 sastsvsseklsenedeevprvppvirPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahfPkihfgl 170 + ++ s++++s+n+ + vpp irPPekrqrvPsaynrfikeeiqrik+snP+ishreafsaaaknWah+P++hfgl Sobic.002G039400.2.p 85 RNLRTPSMYSVSNNQPQ----VPP-IRPPEKRQRVPSAYNRFIKEEIQRIKTSNPEISHREAFSAAAKNWAHLPRLHFGL 159 99999999887777644....455.9**************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	3.6E-62	6	159	IPR006780	YABBY protein
SuperFamily	SSF47095	1.44E-8	101	153	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	9.6E-6	107	153	IPR009071	High mobility group box domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010158	Biological Process	abaxial cell fate specification
GO:0048833	Biological Process	specification of floral organ number
GO:0005634	Cellular Component	nucleus

Sequence ? help Back to Top
Protein Sequence Length: 170 aa Download sequence Send to blast
MSAQFASEHA CYVNCNYCNT ILVVNVPNSC SHNIVTVKCG HCTMVLSMDL SPFHQQARTV 60 PDNQVVQNRG FQYNNFGSYE QASSRNLRTP SMYSVSNNQP QVPPIRPPEK RQRVPSAYNR 120 FIKEEIQRIK TSNPEISHRE AFSAAAKNWA HLPRLHFGLS VADGGGGSN*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Sbi.9964	0.0	ovary

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Detected throughout panicle development with the strongest expression in immature panicles, and weakest in mature panicles. Abundantly found in the stamen and carpel primordia of young spikelets. {ECO:0000269\|PubMed:15604733, ECO:0000269\|PubMed:17216490}.
Uniprot	TISSUE SPECIFICITY: Preferentially expressed in flowers. Expressed in leaf blades and leaf sheaths. Does not show polar expression pattern. {ECO:0000269\|PubMed:15604733}.

Functional Description ? help Back to Top
Source	Description
UniProt	May play a role in floral meristem development and maintenance of stamens, rather than in determining polarity in floral organs. {ECO:0000269\|PubMed:15604733, ECO:0000269\|PubMed:17369428}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.002G039400.2.p

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	EU963149	0.0	EU963149.1 Zea mays clone 258350 protein YABBY mRNA, complete cds.
GenBank	EU970658	0.0	EU970658.1 Zea mays clone 348580 protein YABBY mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002459367.1	1e-125	protein YABBY 1
Swissprot	Q7XIM7	1e-93	YAB1_ORYSJ; Protein YABBY 1
TrEMBL	C5X9N5	1e-123	C5X9N5_SORBI; Uncharacterized protein
STRING	Sb02g003390.1	1e-124	(Sorghum bicolor)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G08465.1	9e-57	YABBY family protein

Link Out ? help Back to Top
Phytozome	Sobic.002G039400.2.p
Entrez Gene	8086428

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] Ohmori Y,Abiko M,Horibata A,Hirano HY A transposon, Ping, is integrated into intron 4 of the DROOPING LEAF gene of rice, weakly reducing its expression and causing a mild drooping leaf phenotype. Plant Cell Physiol., 2008. 49(8): p. 1176-84 [PMID:18593744] Ohmori Y,Toriba T,Nakamura H,Ichikawa H,Hirano HY Temporal and spatial regulation of DROOPING LEAF gene expression that promotes midrib formation in rice. Plant J., 2011. 65(1): p. 77-86 [PMID:21175891] Li H, et al. Rice MADS6 interacts with the floral homeotic genes SUPERWOMAN1, MADS3, MADS58, MADS13, and DROOPING LEAF in specifying floral organ identities and meristem fate. Plant Cell, 2011. 23(7): p. 2536-52 [PMID:21784949] Tanaka W, et al. The YABBY gene TONGARI-BOUSHI1 is involved in lateral organ development and maintenance of meristem organization in the rice spikelet. Plant Cell, 2012. 24(1): p. 80-95 [PMID:22286138] Yang C,Ma Y,Li J The rice YABBY4 gene regulates plant growth and development through modulating the gibberellin pathway. J. Exp. Bot., 2016. 67(18): p. 5545-5556 [PMID:27578842]