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 Gorai.013G080000.1
Common NameB456_013G080000, LOC105783878
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family RAV
Protein Properties Length: 346aa    MW: 38495.4 Da    PI: 9.5271
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.013G080000.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP243.76.7e-144896155
                 AP2  1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55
                        s+ykGV   + +grW A+I++      ++r++lg+f  ++eAaka++ a+++++g
  Gorai.013G080000.1 48 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAAKAYDIAARRFRG 96
                        89****9888.8*********3.....5**********99*************98 PP
2B398.25.2e-31179275192
                         EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                         f+k+ tpsdv+k++rlv+pk++ae+h     g    +++ l +ed +g++W+++++y+++s++yvltkGW++Fvk+++L++gD+v F+++ 
  Gorai.013G080000.1 179 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqtGTAFSKEVLLNFEDVRGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLNAGDIVSFQRST 269
                         89*************************987743444778999**********************************************775 PP

                         SSEE.. CS
                  B3  87 rsefel 92 
                           e++l
  Gorai.013G080000.1 270 GPEKQL 275
                         555545 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000186.24E-2648106No hitNo description
SuperFamilySSF541715.23E-1748104IPR016177DNA-binding domain
PfamPF008472.6E-84896IPR001471AP2/ERF domain
SMARTSM003808.4E-2949110IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.3E-2049105IPR001471AP2/ERF domain
PROSITE profilePS5103220.20549104IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.102.3E-41173290IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.31E-30174282IPR015300DNA-binding pseudobarrel domain
CDDcd100172.69E-27178268No hitNo description
PROSITE profilePS5086314.395179281IPR003340B3 DNA binding domain
SMARTSM010195.5E-24179282IPR003340B3 DNA binding domain
PfamPF023622.4E-28179273IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 346 aa     Download sequence    Send to blast
MDGSSCIDDS TTSDSMNVSP LSPLCRVGSG NSGVILDTEA ESRKLPSSKY KGVVPQPNGR  60
WGAQIYEKHQ RVWLGTFNEE DEAAKAYDIA ARRFRGRDAV TNFKQAEKTE GDDMEMAFLE  120
SRSKAEIVDM LRKHTYNDEL EQSRRSYGLD GNGKRVVKYN AGFGPFSFGL GLKPREQLFE  180
KAVTPSDVGK LNRLVIPKQH AEKHFPLQTG TAFSKEVLLN FEDVRGKVWR FRYSYWNSSQ  240
SYVLTKGWSR FVKEKNLNAG DIVSFQRSTG PEKQLYIDCK ARTGSVSGSA NPAVPVPFVR  300
LFGVNIFNIS GGGGDSVGGC NGKRTREMEL LELEFSKKQR VIDAL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A2e-5717629311128DNA-binding protein RAV1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in leaves. {ECO:0000269|PubMed:18718758}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional repressor of flowering time on long day plants. Acts directly on FT expression by binding 5'-CAACA-3' and 5'-CACCTG-3 sequences. Functionally redundant with TEM2. {ECO:0000269|PubMed:18718758}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Expressed with a circadian rhythm showing a peak at dawn. {ECO:0000269|PubMed:18718758}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012465027.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription repressor RAV2-like
SwissprotQ9C6M51e-142RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A0D2W3Z80.0A0A0D2W3Z8_GOSRA; Uncharacterized protein
STRINGGorai.013G080000.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM84827121
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.11e-140RAV family protein
Publications ? help Back to Top
  1. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]
  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. Choi D, et al.
    iNID: an analytical framework for identifying network models for interplays among developmental signaling in Arabidopsis.
    Mol Plant, 2014. 7(5): p. 792-813
    [PMID:24380880]
  4. Sgamma T,Jackson A,Muleo R,Thomas B,Massiah A
    TEMPRANILLO is a regulator of juvenility in plants.
    Sci Rep, 2014. 4: p. 3704
    [PMID:24424565]
  5. Matías-Hernández L,Aguilar-Jaramillo AE,Marín-González E,Suárez-López P,Pelaz S
    RAV genes: regulation of floral induction and beyond.
    Ann. Bot., 2014. 114(7): p. 1459-70
    [PMID:24812253]
  6. Marín-González E, et al.
    SHORT VEGETATIVE PHASE Up-Regulates TEMPRANILLO2 Floral Repressor at Low Ambient Temperatures.
    Plant Physiol., 2015. 169(2): p. 1214-24
    [PMID:26243615]
  7. Matías-Hernández L, et al.
    TEMPRANILLO Reveals the Mesophyll as Crucial for Epidermal Trichome Formation.
    Plant Physiol., 2016. 170(3): p. 1624-39
    [PMID:26802039]