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 orange1.1g016319m
Common NameCISIN_1g016319mg
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: 392aa    MW: 43753.4 Da    PI: 7.6217
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
orange1.1g016319mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding24.94.6e-08296354147
                        TSSS-HHHHHHHHHHHHHTTTT.........-HHHHHHHHT...TTS-HHHHHHHHHHH CS
    Myb_DNA-binding   1 rgrWTteEdellvdavkqlGgg.........tWktIartmg...kgRtlkqcksrwqky 47 
                        r++W +eE ++l++   +l ++          Wk I+ ++     +Rt+ qcksrw ++
  orange1.1g016319m 296 RNKWRPEEVKKLIKMRGELHSKfqvvkgrmaLWKEISTHLAnegFNRTPSQCKSRWSSL 354
                        799*****************************************99**********876 PP

2trihelix699.4e-22298377186
           trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                        +W  +ev++Li++r e++++++  k +++lW+e+s +++ +gf+r+p qCk++w++l ++y++ k g+++      +++pyf++++
  orange1.1g016319m 298 KWRPEEVKKLIKMRGELHSKFQVVKGRMALWKEISTHLANEGFNRTPSQCKSRWSSLLQKYEESKSGNSQ------KSWPYFEEMN 377
                        7*******************************************************************98......46*******7 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.603.1E-10291357IPR009057Homeodomain-like
PROSITE profilePS5129411.344291359IPR017930Myb domain
SuperFamilySSF466891.79E-6292363IPR009057Homeodomain-like
SMARTSM007172.3E-6295357IPR001005SANT/Myb domain
PfamPF138375.6E-21296379No hitNo description
CDDcd122034.78E-22297362No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009658Biological Processchloroplast organization
GO:0009942Biological Processlongitudinal axis specification
GO:0060918Biological Processauxin transport
GO:0009507Cellular Componentchloroplast
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 392 aa     Download sequence    Send to blast
MLGVSHLRNR RVLSNGFISL GKENLQLMYS DGDKAFGTST ELCVDERLRI ASDGIIVVSM  60
EILRPQHTDG QSGYSLKGKI RITTRCLWLD KGKLLDALHK AAHAALSSCP VNCPLAHVEK  120
TVSEVLRKVV RKYSSKRPEV IAVAMENPAA VLSDELNARL SGNSHVGFGM PALRKMVDRH  180
PKISQLNKTQ AEGDGRQQNL QVDGIEVEEL PEETTTTSSS DHGERLSLDS EDSDEFWKSF  240
VAPASPINSL VKGNNVLIPQ EEQQMSELEE DGTEISDNDS LERSSSQPKP SKGVRRNKWR  300
PEEVKKLIKM RGELHSKFQV VKGRMALWKE ISTHLANEGF NRTPSQCKSR WSSLLQKYEE  360
SKSGNSQKSW PYFEEMNKIF SDSDSEAMAT K*
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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006477011.10.0uncharacterized protein LOC102606767 isoform X2
SwissprotQ84W561e-137RNJ_ARATH; Ribonuclease J
TrEMBLA0A067D4N20.0A0A067D4N2_CITSI; Uncharacterized protein
STRINGXP_006477010.10.0(Citrus sinensis)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G63420.11e-130Trihelix 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]