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

GSBRNA2T00039077001

Common Name

GSBRNA2T00039077001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

MYB_related

Protein Properties

Length: 150aa MW: 16597.9 Da PI: 10.2793

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00039077001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	38.9	2e-12	5	55	1	46
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46 +++WT+eE+ l+ +v ++G+g W+tI + R+ ++k++w++ GSBRNA2T00039077001 5 KQKWTQEEESALKSGVVKHGPGKWRTILKDPEfsgvlYLRSNVDLKDKWRN 55 79*********************************88*********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	11.582	1	58	IPR017930	Myb domain
SuperFamily	SSF46689	7.48E-16	2	67	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	3.1E-14	4	56	IPR009057	Homeodomain-like
SMART	SM00717	8.8E-7	4	59	IPR001005	SANT/Myb domain
Pfam	PF00249	3.8E-9	5	55	IPR001005	SANT/Myb domain
CDD	cd11660	1.63E-19	6	56	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0016021	Cellular Component	integral component of membrane
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 150 aa Download sequence Send to blast
MGAPKQKWTQ EEESALKSGV VKHGPGKWRT ILKDPEFSGV LYLRSNVDLK DKWRNMSVMA 60 NGWGSRDKSR LALKRTHSLP KQDDSSLANT SSLQSDEDMA DAKHFSTTGT SALQLPTTPT 120 PRRPNVRSDI SSMSLLLLCF VAYLQMVGF*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.2522	6e-99	flower\| seed

Functional Description ? help Back to Top
Source	Description
UniProt	Binds preferentially double-stranded telomeric repeats. {ECO:0000269\|PubMed:19102728}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00039077001

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	AY062736	6e-89	AY062736.1 Arabidopsis thaliana Unknown protein (At1g49950; F2J10.16) mRNA, complete cds.
GenBank	AY519539	6e-89	AY519539.1 Arabidopsis thaliana MYB transcription factor (At1g49950) mRNA, complete cds.
GenBank	BT009677	6e-89	BT009677.1 Arabidopsis thaliana At1g49950 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013588561.1	1e-90	PREDICTED: telomere repeat-binding factor 1-like isoform X1
Refseq	XP_013588562.1	1e-90	PREDICTED: telomere repeat-binding factor 1-like isoform X2
Refseq	XP_013720569.1	1e-90	telomere repeat-binding factor 1-like
Refseq	XP_018435923.1	1e-90	PREDICTED: telomere repeat-binding factor 1-like
Swissprot	Q8VWK4	6e-68	TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBL	A0A078GTZ8	1e-106	A0A078GTZ8_BRANA; BnaC06g02940D protein
STRING	Bo6g018740.1	5e-90	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8722	25	39

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G49950.3	5e-65	telomere repeat binding factor 1

Publications ? help Back to Top
Alexandrov NN, et al. Features of Arabidopsis genes and genome discovered using full-length cDNAs. Plant Mol. Biol., 2006. 60(1): p. 69-85 [PMID:16463100] Schrumpfová PP, et al. Telomere repeat binding proteins are functional components of Arabidopsis telomeres and interact with telomerase. Plant J., 2014. 77(5): p. 770-81 [PMID:24397874] Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] Liang SC, et al. Kicking against the PRCs - A Domesticated Transposase Antagonises Silencing Mediated by Polycomb Group Proteins and Is an Accessory Component of Polycomb Repressive Complex 2. PLoS Genet., 2015. 11(12): p. e1005660 [PMID:26642436] Fulcher N,Riha K Using Centromere Mediated Genome Elimination to Elucidate the Functional Redundancy of Candidate Telomere Binding Proteins in Arabidopsis thaliana. Front Genet, 2015. 6: p. 349 [PMID:26779251] Kotliński M, et al. Phylogeny-Based Systematization of Arabidopsis Proteins with Histone H1 Globular Domain. Plant Physiol., 2017. 174(1): p. 27-34 [PMID:28298478]