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.001G398100.1.p

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

MYB_related

Protein Properties

Length: 328aa MW: 34722 Da PI: 4.2445

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.001G398100.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	29.6	1.6e-09	32	56	23	48
-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 23 tWktIartmgkgRtlkqcksrwqkyl 48 +W++Ia++++ gRt++++k++w+++l Sobic.001G398100.1.p 32 QWSLIASHLP-GRTDNEIKNYWNSHL 56 7*******.**********986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	9.081	16	60	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	1.3E-12	31	56	IPR009057	Homeodomain-like
SuperFamily	SSF46689	7.8E-8	31	61	IPR009057	Homeodomain-like
CDD	cd00167	5.18E-7	32	56	No hit	No description
Pfam	PF00249	2.4E-7	32	56	IPR001005	SANT/Myb domain
Pfam	PF06640	1.8E-106	74	327	IPR010588	Myb-related protein P, C-terminal

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 328 aa Download sequence Send to blast
MSSPSVVMLY MLFSFIPTKL ATKWQVDAQQ AQWSLIASHL PGRTDNEIKN YWNSHLSRQI 60 HTYRRKYTAA PDTTVIIDMS KLHSAEKRRG GRTPGWSPKS SSANTTTNTT SSKTNKSKET 120 DPGPGLKSAC DAKGASSPPT AATTMSAASS PRHSDGARSA VVDPDPNQPN SSSGSTAEGA 180 CSGEDATGPW ELDPIDLGDL WEAESEIDAL MSMDAPLEGF DAVVGEAQAQ VDDLFDMDMD 240 WDGFAAHLWG GPEQNDHIAE LQQAAEPQAT AAACTPNEHE PQVAAAAAAC SPDEQEPQAA 300 AAAAAATCTP DEHGLEAFET WLLSDSF*

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor postulated to regulate the biosynthetic pathway of a flavonoid-derived pigment in certain floral tissues.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.001G398100.1.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	AY860968	0.0	AY860968.1 Sorghum bicolor yellow seed1 (y1) gene, y1-rr allele, complete cds; and y2 pseudogene, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021313755.1	0.0	myb-related protein P isoform X1
Swissprot	P27898	3e-46	MYBP_MAIZE; Myb-related protein P
TrEMBL	A0A1Z5SA03	0.0	A0A1Z5SA03_SORBI; Uncharacterized protein
STRING	Sb01g037690.1	1e-178	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP79	38	563
Representative plant	OGRP5	17	1784

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G47460.1	4e-17	myb domain protein 12

Link Out ? help Back to Top
Phytozome	Sobic.001G398100.1.p

Publications ? help Back to Top
Robbins ML,Sekhon RS,Meeley R,Chopra S A Mutator transposon insertion is associated with ectopic expression of a tandemly repeated multicopy Myb gene pericarp color1 of maize. Genetics, 2008. 178(4): p. 1859-74 [PMID:18430921] Sidorenko L,Chandler V RNA-dependent RNA polymerase is required for enhancer-mediated transcriptional silencing associated with paramutation at the maize p1 gene. Genetics, 2008. 180(4): p. 1983-93 [PMID:18845841] Robbins ML,Wang P,Sekhon RS,Chopra S Gene structure induced epigenetic modifications of pericarp color1 alleles of maize result in tissue-specific mosaicism. PLoS ONE, 2009. 4(12): p. e8231 [PMID:20011605] Rhee Y,Sekhon RS,Chopra S,Kaeppler S Tissue culture-induced novel epialleles of a Myb transcription factor encoded by pericarp color1 in maize. Genetics, 2010. 186(3): p. 843-55 [PMID:20823340] Morohashi K, et al. A genome-wide regulatory framework identifies maize pericarp color1 controlled genes. Plant Cell, 2012. 24(7): p. 2745-64 [PMID:22822204]