PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Carubv10005376m
Common NameCARUB_v10005376mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family MYB_related
Protein Properties Length: 296aa    MW: 33256.1 Da    PI: 6.9662
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10005376mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding51.32.8e-163680147
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47
                     r +WT+ E+e++v+a k++G   W++I +++g ++t+ q++s+ qk+
  Carubv10005376m 36 REKWTEAEHEKFVEALKLYGRA-WRRIEEHVG-TKTAVQIRSHAQKF 80
                     789*****************88.*********.************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466898.97E-163084IPR009057Homeodomain-like
PROSITE profilePS5129420.7053185IPR017930Myb domain
TIGRFAMsTIGR015571.5E-163483IPR006447Myb domain, plants
SMARTSM007171.6E-123583IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.604.8E-93676IPR009057Homeodomain-like
PfamPF002491.6E-133679IPR001005SANT/Myb domain
CDDcd001671.90E-93881No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007623Biological Processcircadian rhythm
GO:0009651Biological Processresponse to salt stress
GO:0009723Biological Processresponse to ethylene
GO:0009733Biological Processresponse to auxin
GO:0009737Biological Processresponse to abscisic acid
GO:0009739Biological Processresponse to gibberellin
GO:0009751Biological Processresponse to salicylic acid
GO:0009753Biological Processresponse to jasmonic acid
GO:0009845Biological Processseed germination
GO:0009909Biological Processregulation of flower development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 296 aa     Download sequence    Send to blast
MAMQESLCDR ASDELISSTD AFYLKTRKPY TITKQREKWT EAEHEKFVEA LKLYGRAWRR  60
IEEHVGTKTA VQIRSHAQKF FTKVARDFGV SSETIEIPPP RPKRKPMHPY PRKLVIPDAK  120
EMVYGDLTGA KLVQDEDNRS PTSVLSAHGS DGLDSIGSNS PNSSSADYQH SPGHNELSSH  180
TEESLSPEAE TKQSLKLFGK TFVVGDYNSS TSSDDSEDVK KSETQSVLCS SSSSSENIET  240
EMTLRVSPEF KRSERSAFSQ LKSSVVTEIR GFMPYKKRVK VEENIDNVKM SYPLW*
Functional Description ? help Back to Top
Source Description
UniProtPositive regulator for cold-responsive gene expression and cold tolerance. Part of a regulatory feedback loop that controls a subset of the circadian outputs and modulates the central oscillator. Negatively self-regulates its own expression. {ECO:0000269|PubMed:17587236, ECO:0000269|PubMed:23371945}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10005376m
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Circadian-regulation. Peak of transcript abundance near subjective dawn. Up-regulated transiently by light. {ECO:0000269|PubMed:17587236, ECO:0000269|PubMed:19805390}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0170691e-39AB017069.1 Arabidopsis thaliana genomic DNA, chromosome 5, P1 clone:MNJ8.
GenBankAY5195151e-39AY519515.1 Arabidopsis thaliana MYB transcription factor (At5g37260) mRNA, complete cds.
GenBankBT0109471e-39BT010947.1 Arabidopsis thaliana At5g37260 gene, complete cds.
GenBankBT0116411e-39BT011641.1 Arabidopsis thaliana At5g37260 mRNA, complete cds.
GenBankCP0026881e-39CP002688.1 Arabidopsis thaliana chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006284219.10.0protein REVEILLE 2
SwissprotF4K5X61e-167RVE2_ARATH; Protein REVEILLE 2
TrEMBLR0F5Q40.0R0F5Q4_9BRAS; Uncharacterized protein
STRINGXP_006284219.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM144321922
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G37260.11e-138MYB_related family protein
Publications ? help Back to Top
  1. Chaudhury A,Okada K,Raikhel NV,Shinozaki K,Sundaresan V V
    A weed reaches new heights down under
    Plant Cell, 1999. 11(10): p. 1817-26
    [PMID:10521514]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Jiang Z,Xu G,Jing Y,Tang W,Lin R
    Phytochrome B and REVEILLE1/2-mediated signalling controls seed dormancy and germination in Arabidopsis.
    Nat Commun, 2016. 7: p. 12377
    [PMID:27506149]