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

GSBRNA2T00021546001

Common Name

GSBRNA2T00021546001

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

bHLH

Protein Properties

Length: 653aa MW: 74287.1 Da PI: 10.2295

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00021546001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	47.3	3.8e-15	461	506	5	55
HHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 5 hnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 hne ErrRR+riN+++ +L++llP+a K +K++iL ++e++k+Lq GSBRNA2T00021546001 461 HNESERRRRHRINQRMRTLQKLLPTA-----SKADKVSILDDVIEHLKQLQ 506 ***********************9.....7****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03763	4.5E-19	153	252	IPR005516	Remorin, C-terminal
SuperFamily	SSF47459	3.53E-17	453	524	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	16.939	456	505	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	3.50E-7	461	510	No hit	No description
Gene3D	G3DSA:4.10.280.10	7.3E-16	461	516	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.0E-12	461	506	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.9E-16	462	511	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 653 aa Download sequence Send to blast
MDNLVKQRRR RVSVSENKQT DMPKLSELAI TDNPALNWLK NQAYWYEKND YYDEKESEFA 60 TSVAAAAFVI ASMEEAYKEH AKRMREETKR SRKKKTNPVI AKSEVKRINR SYTQDLTIGE 120 ESFKKQQMDN PQKDRREQEI GSSSRTSGLA SAPSKADSWE KSQLDKIRLR YEKMKAEIVG 180 WENERKSAAK LRMEKRKSEL QKRTEINNQH YKAKLARIQV IADGAKKQLE EKKRSQEAQV 240 QEKVKKMRRT GKREDSRQGN SNPLPHILEN RGGHQDYTTK RRKKKEKLNC QSNYGVKELT 300 WENGQLTVHG LGEGVEPTTA SANLLWTQAL NGCETLESVV HQAALQPSKL QSQNGRDHNN 360 SESKDGSCSR KRGYPQEMDC WFSGQEESHR VGHSVTASAS GTNMSWASFE SGRSLKTART 420 GDRDYLFSGS ETKETEGDEQ ETRGEAGRSN NGRRGRAAAI HNESERRRRH RINQRMRTLQ 480 KLLPTASKAD KVSILDDVIE HLKQLQAQVQ FMSLRANLPQ QMMMPQSVLS IQHQQQQHQQ 540 QQQQQQQQQQ QQFQMSLLAT MARMGMGGGG NAAYGGLVPP PPPLMIPPMD NRDCTNASSA 600 SLTDPYSAFL AQTMNMDLYN KMAAAIYRQQ SDQTTKVNTS MPSSSSNHEK RD*

Sequence ? help Back to Top

Protein Sequence Length: 653 aa Download sequence Send to blast

MDNLVKQRRR RVSVSENKQT DMPKLSELAI TDNPALNWLK NQAYWYEKND YYDEKESEFA  60
TSVAAAAFVI ASMEEAYKEH AKRMREETKR SRKKKTNPVI AKSEVKRINR SYTQDLTIGE  120
ESFKKQQMDN PQKDRREQEI GSSSRTSGLA SAPSKADSWE KSQLDKIRLR YEKMKAEIVG  180
WENERKSAAK LRMEKRKSEL QKRTEINNQH YKAKLARIQV IADGAKKQLE EKKRSQEAQV  240
QEKVKKMRRT GKREDSRQGN SNPLPHILEN RGGHQDYTTK RRKKKEKLNC QSNYGVKELT  300
WENGQLTVHG LGEGVEPTTA SANLLWTQAL NGCETLESVV HQAALQPSKL QSQNGRDHNN  360
SESKDGSCSR KRGYPQEMDC WFSGQEESHR VGHSVTASAS GTNMSWASFE SGRSLKTART  420
GDRDYLFSGS ETKETEGDEQ ETRGEAGRSN NGRRGRAAAI HNESERRRRH RINQRMRTLQ  480
KLLPTASKAD KVSILDDVIE HLKQLQAQVQ FMSLRANLPQ QMMMPQSVLS IQHQQQQHQQ  540
QQQQQQQQQQ QQFQMSLLAT MARMGMGGGG NAAYGGLVPP PPPLMIPPMD NRDCTNASSA  600
SLTDPYSAFL AQTMNMDLYN KMAAAIYRQQ SDQTTKVNTS MPSSSSNHEK RD*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	280	285	RRKKKE
2	281	286	RKKKEK

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Barely detectable in dark-grown seedlings. Induced after 2 hours of light exposure.
Uniprot	TISSUE SPECIFICITY: Expressed in flowers. {ECO:0000269\|PubMed:12679534}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor acting negatively in the phytochrome B signaling pathway under prolonged red light. Regulates PHYB abundance at the post-transcriptional level, possibly via the ubiquitin-proteasome pathway. May regulate the expression of a subset of genes by binding to the G-box motif. {ECO:0000269\|PubMed:15486100, ECO:0000269\|PubMed:18252845}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00021546001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By red light. Stable upon light exposure.

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	AK352734	0.0	AK352734.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-03-L18.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013594159.1	0.0	PREDICTED: transcription factor PIF7
Swissprot	Q570R7	1e-180	PIF7_ARATH; Transcription factor PIF7
TrEMBL	A0A078GEN9	0.0	A0A078GEN9_BRANA; BnaC07g31140D protein
STRING	Bra012972.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM14123	18	22

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G61270.1	1e-160	phytochrome-interacting factor7

Publications ? help Back to Top
Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature. Differentiation, 2010. 80(1): p. 1-8 [PMID:20219281] 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] de Wit M,Ljung K,Fankhauser C Contrasting growth responses in lamina and petiole during neighbor detection depend on differential auxin responsiveness rather than different auxin levels. New Phytol., 2015. 208(1): p. 198-209 [PMID:25963518] Bou-Torrent J, et al. Regulation of Carotenoid Biosynthesis by Shade Relies on Specific Subsets of Antagonistic Transcription Factors and Cofactors. Plant Physiol., 2015. 169(3): p. 1584-94 [PMID:26082398] Mizuno T,Oka H,Yoshimura F,Ishida K,Yamashino T Insight into the mechanism of end-of-day far-red light (EODFR)-induced shade avoidance responses in Arabidopsis thaliana. Biosci. Biotechnol. Biochem., 2015. 79(12): p. 1987-94 [PMID:26193333] Paik I,Kathare PK,Kim JI,Huq E Expanding Roles of PIFs in Signal Integration from Multiple Processes. Mol Plant, 2017. 10(8): p. 1035-1046 [PMID:28711729] Peng M, et al. Linking PHYTOCHROME-INTERACTING FACTOR to Histone Modification in Plant Shade Avoidance. Plant Physiol., 2018. 176(2): p. 1341-1351 [PMID:29187567] Huang X, et al. Shade-induced nuclear localization of PIF7 is regulated by phosphorylation and 14-3-3 proteins in Arabidopsis. Elife, 2019. [PMID:29926790]