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

GSBRNA2T00098554001

Common Name

GSBRNA2T00098554001, LOC106352684

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

HD-ZIP

Protein Properties

Length: 179aa MW: 20653.3 Da PI: 6.7956

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00098554001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	60.5	2.7e-19	26	80	3	57
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 k++++t eq++ Le+ Fe+++++ e+++eLAk lgL++rqV vWFqNr+a+ k+ GSBRNA2T00098554001 26 KKRRLTIEQVNMLEKSFEEENKLEPERKTELAKMLGLPQRQVAVWFQNRKARCKN 80 56689***********************************************995 PP
2	HD-ZIP_I/II	121.4	4.4e-39	25	115	1	91
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLree 90 ekkrrl+ eqv++LE+sFeee+kLeperK+ela+ Lgl +rqvavWFqnr+AR k+k++E+dy++Lk++yd+l +++e++ +e+e+L+++ GSBRNA2T00098554001 25 EKKRRLTIEQVNMLEKSFEEENKLEPERKTELAKMLGLPQRQVAVWFQNRKARCKNKKIERDYDVLKACYDSLLAKHESVISENEKLKSK 114 69**************************************************************************************98 PP HD-ZIP_I/II 91 l 91 + GSBRNA2T00098554001 115 V 115 7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	4.71E-19	12	82	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.265	21	81	IPR001356	Homeobox domain
SMART	SM00389	2.1E-18	24	85	IPR001356	Homeobox domain
Pfam	PF00046	1.6E-16	26	79	IPR001356	Homeobox domain
CDD	cd00086	2.15E-15	26	82	No hit	No description
Gene3D	G3DSA:1.10.10.60	2.1E-20	28	88	IPR009057	Homeodomain-like
PRINTS	PR00031	3.1E-6	52	61	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	56	79	IPR017970	Homeobox, conserved site
PRINTS	PR00031	3.1E-6	61	77	IPR000047	Helix-turn-helix motif
Pfam	PF02183	1.3E-15	81	122	IPR003106	Leucine zipper, homeobox-associated

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 179 aa Download sequence Send to blast
MDPNYDQESR SRSAPTGEID SQPAEKKRRL TIEQVNMLEK SFEEENKLEP ERKTELAKML 60 GLPQRQVAVW FQNRKARCKN KKIERDYDVL KACYDSLLAK HESVISENEK LKSKVFTLTE 120 MLLPAAHQTQ RNHQGKLNSK GDDETMSSST ALVPLSNDQY FTNVDESFGW WVWPSNLM*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in seedlings, roots, leaves, nodes, internodes, flowers and embryo. {ECO:0000269\|PubMed:10732669, ECO:0000269\|PubMed:17999151}.
Uniprot	TISSUE SPECIFICITY: Expressed in seedlings, roots, leaves, nodes, internodes, flowers and embryo. {ECO:0000269\|PubMed:10732669, ECO:0000269\|PubMed:17999151}.
Uniprot	TISSUE SPECIFICITY: Widely expressed. {ECO:0000269\|PubMed:16055682}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription activator involved in leaf development. Binds to the DNA sequence 5'-CAAT[AT]ATTG-3'. {ECO:0000269\|PubMed:8535134}.
UniProt	Probable transcription activator that binds to the DNA sequence 5'-CAAT[AT]ATTG-3'. {ECO:0000269\|PubMed:10732669}.
UniProt	Probable transcription activator that binds to the DNA sequence 5'-CAAT[AT]ATTG-3'. {ECO:0000269\|PubMed:10732669}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00098554001

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	AC232548	1e-130	AC232548.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH010J09, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013647767.1	1e-131	homeobox-leucine zipper protein HAT5 isoform X1
Refseq	XP_013647768.1	1e-131	homeobox-leucine zipper protein HAT5 isoform X2
Swissprot	Q02283	3e-40	HAT5_ARATH; Homeobox-leucine zipper protein HAT5
Swissprot	Q6ZA74	6e-40	HOX5_ORYSJ; Homeobox-leucine zipper protein HOX5
Swissprot	Q9XH36	6e-40	HOX5_ORYSI; Homeobox-leucine zipper protein HOX5
TrEMBL	A0A397YL37	1e-130	A0A397YL37_BRACM; Uncharacterized protein
STRING	Bra028454.1-P	1e-128	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM16382	11	13

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G01470.1	1e-42	homeobox 1

Link Out ? help Back to Top
Entrez Gene	106352684

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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] 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] Ribone PA,Capella M,Arce AL,Chan RL A uORF Represses the Transcription Factor AtHB1 in Aerial Tissues to Avoid a Deleterious Phenotype. Plant Physiol., 2017. 175(3): p. 1238-1253 [PMID:28956754]