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 Ciclev10021345m
Common NameCICLE_v10021345mg
Organism
Citrus clementina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family MYB
Protein Properties Length: 303aa    MW: 34358.7 Da    PI: 5.8834
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10021345mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding43.76.5e-141055146
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46
                     +g+W +eEde l++ vk++G+++W++I ++  + Rt+k+c++rw +
  Ciclev10021345m 10 KGPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVN 55
                     79*************************8887799**********87 PP
2Myb_DNA-binding43.86e-1466105344
                      SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHH CS
  Myb_DNA-binding   3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrw 44 
                      +++ eE+ + +++ +q+G++ W++Ia +++ gRt++++k++w
  Ciclev10021345m  66 KFSLEEERIVIELQAQFGNK-WARIATYLP-GRTDNDVKNFW 105
                      799*****************.*********.*********** PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129421.904561IPR017930Myb domain
Gene3DG3DSA:1.10.10.601.3E-21558IPR009057Homeodomain-like
SuperFamilySSF466893.05E-288105IPR009057Homeodomain-like
SMARTSM007174.6E-11959IPR001005SANT/Myb domain
CDDcd001671.98E-111257No hitNo description
PfamPF139214.3E-121363No hitNo description
Gene3DG3DSA:1.10.10.605.5E-1859111IPR009057Homeodomain-like
PROSITE profilePS5129418.2962113IPR017930Myb domain
SMARTSM007171.3E-1263111IPR001005SANT/Myb domain
CDDcd001671.70E-1066105No hitNo description
PfamPF002492.6E-1266105IPR001005SANT/Myb domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0048235Biological Processpollen sperm cell differentiation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 303 aa     Download sequence    Send to blast
MEGKREEIRK GPWKAEEDEV LINHVKKYGP RDWSSIRSKG LLQRTGKSCR LRWVNKLRPN  60
LKNGCKFSLE EERIVIELQA QFGNKWARIA TYLPGRTDND VKNFWSSRQK RLARILQNSA  120
TTSSSNSKSY KTKREFPASP DASTLEAPKF TSSMEEESSS KRQSCSSSNM MGNAELIAMA  180
PLPEMINPKL LHFGASCENN PCTEPVLPIY FPQISQPQQD LPFSPESQEL LARLEDPYFF  240
DVFGPVDAPP ELSGQPFLKP ETSCRTGMKD ENDKTVNPDA FFDDFPTDMF DHIEPLPSPS  300
DW*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1h8a_C6e-29711124126MYB TRANSFORMING PROTEIN
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Strict spatial and temporal transcriptional activation leading to a specific expression in the male germline cells; this specific expression pattern is dependent of the regulatory region of DUO1 (ROD1) 5'-YAACYGY-3' in its promoter (PubMed:15694308, PubMed:27624837). First observed in the germ cell during or soon after engulfment by the vegetative cell, just after asymmetric division. In maturating pollen, accumulates in germ cells before mitosis and remains high in mature sperm cells. Expression persists during pollen development (PubMed:19300502). {ECO:0000269|PubMed:15694308, ECO:0000269|PubMed:19300502, ECO:0000269|PubMed:27624837}.
UniprotTISSUE SPECIFICITY: Confined to inflorescences, especially in stamens and pollen. {ECO:0000269|PubMed:15694308}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that acts as a positive regulator of male germline development by promoting both gametic cell specification and cell cycle progression (PubMed:15694308, PubMed:15618418, PubMed:19300502, PubMed:21285328). Binds to canonical MYB sites 5'-AACCGTC-3', 5'-AAACCGC-3' and 5'-AACCGT-3' in promoters to trigger the expression of male germline-specific or enriched genes (e.g. MGH3, GEX2 and GCS1), including those required for fertilization (PubMed:21285328, PubMed:19300502). Required for sperm cell specification leading to pollen maturation by activating a germline-specific regulon (PubMed:21285328, PubMed:15694308, PubMed:15618418, PubMed:19300502). Involved in pollen mitosis entry at G2-M transition via the regulation of CYCB1-1, DAZ1 and DAZ2 expression (PubMed:15618418, PubMed:19300502, PubMed:24876252). {ECO:0000269|PubMed:15618418, ECO:0000269|PubMed:15694308, ECO:0000269|PubMed:19300502, ECO:0000269|PubMed:21285328, ECO:0000269|PubMed:24876252}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by the microRNA 159 (miR159); the production of miR159 is stimulated by the anaphase promoting complex/cyclosome (APC/C) (PubMed:21441434). Activated by ARID1 in male germline cells via specific histone acetylation regulation (e.g. H3K9Ac) (PubMed:25057814). {ECO:0000269|PubMed:21441434, ECO:0000269|PubMed:25057814}.
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_006445379.10.0transcription factor DUO1
RefseqXP_006464457.10.0transcription factor DUO1
SwissprotA0A178VEK71e-102DUO1_ARATH; Transcription factor DUO1
TrEMBLV4VYR50.0V4VYR5_9ROSI; Uncharacterized protein
STRINGXP_006464457.10.0(Citrus sinensis)
STRINGXP_006445379.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM65512842
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G60460.11e-97MYB family protein
Publications ? help Back to Top
  1. Zheng B,He H,Zheng Y,Wu W,McCormick S
    An ARID domain-containing protein within nuclear bodies is required for sperm cell formation in Arabidopsis thaliana.
    PLoS Genet., 2014. 10(7): p. e1004421
    [PMID:25057814]
  2. Peters B, et al.
    A Conserved cis-Regulatory Module Determines Germline Fate through Activation of the Transcription Factor DUO1 Promoter.
    Plant Physiol., 2017. 173(1): p. 280-293
    [PMID:27624837]
  3. Zheng Z, et al.
    Target RNA Secondary Structure Is a Major Determinant of miR159 Efficacy.
    Plant Physiol., 2017. 174(3): p. 1764-1778
    [PMID:28515145]