PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID orange1.1g040954m
Common NameCISIN_1g040954mg
Organism
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 Trihelix
Protein Properties Length: 333aa    MW: 37178.7 Da    PI: 6.7259
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
orange1.1g040954mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding22.52.6e-07238295247
                        SSS-HHHHHHHHHHHHHTTTT.........-HHHHHHHHT...TTS-HHHHHHHHHHH CS
    Myb_DNA-binding   2 grWTteEdellvdavkqlGgg.........tWktIartmg...kgRtlkqcksrwqky 47 
                        ++W +eE ++l++   +l ++          Wk I+ ++     +R++ qcksrw ++
  orange1.1g040954m 238 NKWRPEEVKKLIKMRGELHSKfqivkgrmaLWKEISTHLAnegFNRSPSQCKSRWSSL 295
                        58*****************************************99**********876 PP

2trihelix70.53.2e-22239318186
           trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                        +W  +ev++Li++r e++++++  k +++lW+e+s +++ +gf+rsp qCk++w++l ++y++ k g+++      +++pyf++++
  orange1.1g040954m 239 KWRPEEVKKLIKMRGELHSKFQIVKGRMALWKEISTHLANEGFNRSPSQCKSRWSSLLQKYEESKSGNSQ------KSWPYFEEMN 318
                        7*******************************************************************98......46*******7 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.8E-9232298IPR009057Homeodomain-like
PROSITE profilePS512949.33232300IPR017930Myb domain
SuperFamilySSF466894.73E-6234304IPR009057Homeodomain-like
SMARTSM007172.5E-5236298IPR001005SANT/Myb domain
CDDcd122037.23E-22238303No hitNo description
PfamPF138376.1E-21238320No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 333 aa     Download sequence    Send to blast
MEILRPQHTD GQSGYSLKGK IRITTRCLWL DKGKLLDALH NAAHAALSSC PVNCPLAHME  60
KTVSEVLRKV VRKYSSKRPE VIAVAMENPA AVLSDELNAR LSGNSHVGFG MPALRKMVDR  120
HPKRSQLNRT QAEGDGRQQN LQVDGIEVEE LPEETTTTSN SDYGERLSLD SEDSDEFGKS  180
FVAPASPINS LVKGNNVLIP QEEQQMSELE EDGTEISDDD SSESSSSQPK PSKGVRQNKW  240
RPEEVKKLIK MRGELHSKFQ IVKGRMALWK EISTHLANEG FNRSPSQCKS RWSSLLQKYE  300
ESKSGNSQKS WPYFEEMNKI FSDSDSEAMA TK*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Csi.59600.0callus| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During the early stages of embryo development, first observed at the transition stage. In the heart and torpedo stages, predominantly present in the upper part of embryos. In seedlings, strongly expressed in shoot meristems, hypocotyls, in the vascular bundles of cotyledons, and in the veins of mature leaves. In reproductive organs, detected in inflorescences, especially in sepals, filaments, and stigmas, as well as in mature siliques and seeds. {ECO:0000269|PubMed:25871650}.
UniprotTISSUE SPECIFICITY: Moslty expressed in inflorescences, seedlings, leaves, flowers and flower buds, and, to a lower extent, in stems, siliques and roots. {ECO:0000269|PubMed:25871650}.
Functional Description ? help Back to Top
Source Description
UniProtEssential protein required during embryogenesis, especially in initiating and maintaining the organization of shoot apical meristems (SAMs), cotyledons, and hypocotyls (PubMed:15266054, PubMed:25871650). Involved in auxin-mediated pathways during embryogenesis (PubMed:25871650). RNase that has both endonuclease and 5'-3' exonuclease activities. Involved in RNA surveillance to prevent overaccumulation of antisense RNA (PubMed:22033332). Probably involved in maturation of rRNA and in some organisms also mRNA maturation and/or decay (By similarity). {ECO:0000250|UniProtKB:Q72JJ7, ECO:0000269|PubMed:15266054, ECO:0000269|PubMed:22033332, ECO:0000269|PubMed:25871650}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By light. {ECO:0000269|PubMed:25871650}.
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_024043541.10.0uncharacterized protein LOC18048021 isoform X3
SwissprotQ84W564e-96RNJ_ARATH; Ribonuclease J
TrEMBLA0A067EN540.0A0A067EN54_CITSI; Uncharacterized protein
TrEMBLV4TNS70.0V4TNS7_9ROSI; Uncharacterized protein
STRINGXP_006440090.10.0(Citrus clementina)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G63420.12e-89Trihelix family protein
Publications ? help Back to Top
  1. Bryant N,Lloyd J,Sweeney C,Myouga F,Meinke D
    Identification of nuclear genes encoding chloroplast-localized proteins required for embryo development in Arabidopsis.
    Plant Physiol., 2011. 155(4): p. 1678-89
    [PMID:21139083]
  2. Halpert M,Liveanu V,Glaser F,Schuster G
    The Arabidopsis chloroplast RNase J displays both exo- and robust endonucleolytic activities.
    Plant Mol. Biol., 2019. 99(1-2): p. 17-29
    [PMID:30511330]