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

Pavir.6NG347500.3.p

Organism

Panicum virgatum

Taxonomic ID

38727

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

MYB_related

Protein Properties

Length: 164aa MW: 18582 Da PI: 6.2624

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.6NG347500.3.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	54.4	3e-17	2	43	5	48
-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 5 TteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 +++E+ l++++++q+G++ W++Iar+++ gRt++++k++w++++ Pavir.6NG347500.3.p 2 SPQEERLIIELHAQWGNR-WSRIARRLP-GRTDNEIKNYWRTHM 43 89**************.*****.**********986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00167	1.56E-12	1	43	No hit	No description
SMART	SM00717	3.9E-12	1	45	IPR001005	SANT/Myb domain
PROSITE profile	PS51294	25.237	1	47	IPR017930	Myb domain
Pfam	PF00249	2.6E-15	2	42	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	6.8E-21	2	44	IPR009057	Homeodomain-like
SuperFamily	SSF46689	3.82E-13	2	51	IPR009057	Homeodomain-like

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: 164 aa Download sequence Send to blast
MSPQEERLII ELHAQWGNRW SRIARRLPGR TDNEIKNYWR THMRKKAQER KMSISPSSSS 60 SSLTYQSCLL DNSSIIGMGS GDTHNGSTCV SSTLESTQSS MDAYPMDQIW REIEAPALLG 120 TAEGKEKTCS SIPCTLPSPA MWDYKFPEIF WKMEDEEIRM LAL*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pvr.24640	0.0	leaf\| root

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor. {ECO:0000305}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.6NG347500.3.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	EU652463	1e-141	EU652463.1 Saccharum officinarum MYB protein (MYBAS1) mRNA, complete cds, alternatively spliced.
GenBank	EU670236	1e-141	EU670236.1 Saccharum officinarum MYB transcription factor MYBAS1 (MYBAS1) mRNA, complete cds, alternatively spliced.
GenBank	HM136780	1e-141	HM136780.1 Saccharum hybrid cultivar Co 740 MYB transcription factor variant 1 (MYBAS1) mRNA, complete cds, alternatively spliced.
GenBank	HM136781	1e-141	HM136781.1 Saccharum hybrid cultivar Co 740 MYB transcription factor variant 2 (MYBAS1) mRNA, complete cds.
GenBank	HM136782	1e-141	HM136782.1 Saccharum hybrid cultivar Co 740 MYB transcription factor variant 3 (MYBAS1) mRNA, complete cds, alternatively spliced.
GenBank	KM387410	1e-141	KM387410.1 Saccharum officinarum cultivar Badila R2R3-MYB transcription factor variant 1 mRNA, complete cds, alternatively spliced.
GenBank	KM387411	1e-141	KM387411.1 Saccharum officinarum cultivar Badila R2R3-MYB transcription factor variant 2 mRNA, complete cds, alternatively spliced.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004980031.1	2e-98	myb-related protein MYBAS1
Swissprot	Q53NK6	3e-74	MYBA1_ORYSJ; Myb-related protein MYBAS1
TrEMBL	A0A3L6RGN4	1e-100	A0A3L6RGN4_PANMI; Myb-related protein MYBAS1-like
STRING	Pavir.J08441.1.p	1e-117	(Panicum virgatum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G46130.2	7e-33	myb domain protein 48

Link Out ? help Back to Top
Phytozome	Pavir.6NG347500.3.p

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]