C3H6_ORYSJ
ID C3H6_ORYSJ Reviewed; 476 AA.
AC Q5NAW2; A0A0P0V0L0; Q0JNX7; Q5NAW3; Q6IVC4;
DT 26-APR-2005, integrated into UniProtKB/Swiss-Prot.
DT 26-APR-2005, sequence version 2.
DT 03-AUG-2022, entry version 93.
DE RecName: Full=Zinc finger CCCH domain-containing protein 6;
DE Short=OsC3H6;
DE AltName: Full=Zinc finger CCCH domain-containing protein ZFN-like 1;
GN OrderedLocusNames=Os01g0258700, LOC_Os01g15460;
GN ORFNames=P0462H08.27-1, P0462H08.27-2;
OS Oryza sativa subsp. japonica (Rice).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade;
OC Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa.
OX NCBI_TaxID=39947;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 3).
RC STRAIN=cv. Aichi asahi;
RA Meng X.-B., Lin R.-M., Wang M., Zhao W.-S., Zhang S.-H., Peng Y.-L.;
RT "Molecular cloning and expression of a Magnaporthe grisea induced cDNA
RT encoding a zinc-finger transcription factor.";
RL Submitted (APR-2004) to the EMBL/GenBank/DDBJ databases.
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=12447438; DOI=10.1038/nature01184;
RA Sasaki T., Matsumoto T., Yamamoto K., Sakata K., Baba T., Katayose Y.,
RA Wu J., Niimura Y., Cheng Z., Nagamura Y., Antonio B.A., Kanamori H.,
RA Hosokawa S., Masukawa M., Arikawa K., Chiden Y., Hayashi M., Okamoto M.,
RA Ando T., Aoki H., Arita K., Hamada M., Harada C., Hijishita S., Honda M.,
RA Ichikawa Y., Idonuma A., Iijima M., Ikeda M., Ikeno M., Ito S., Ito T.,
RA Ito Y., Ito Y., Iwabuchi A., Kamiya K., Karasawa W., Katagiri S.,
RA Kikuta A., Kobayashi N., Kono I., Machita K., Maehara T., Mizuno H.,
RA Mizubayashi T., Mukai Y., Nagasaki H., Nakashima M., Nakama Y.,
RA Nakamichi Y., Nakamura M., Namiki N., Negishi M., Ohta I., Ono N., Saji S.,
RA Sakai K., Shibata M., Shimokawa T., Shomura A., Song J., Takazaki Y.,
RA Terasawa K., Tsuji K., Waki K., Yamagata H., Yamane H., Yoshiki S.,
RA Yoshihara R., Yukawa K., Zhong H., Iwama H., Endo T., Ito H., Hahn J.H.,
RA Kim H.-I., Eun M.-Y., Yano M., Jiang J., Gojobori T.;
RT "The genome sequence and structure of rice chromosome 1.";
RL Nature 420:312-316(2002).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=16100779; DOI=10.1038/nature03895;
RG International rice genome sequencing project (IRGSP);
RT "The map-based sequence of the rice genome.";
RL Nature 436:793-800(2005).
RN [4]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=18089549; DOI=10.1093/nar/gkm978;
RG The rice annotation project (RAP);
RT "The rice annotation project database (RAP-DB): 2008 update.";
RL Nucleic Acids Res. 36:D1028-D1033(2008).
RN [5]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=24280374; DOI=10.1186/1939-8433-6-4;
RA Kawahara Y., de la Bastide M., Hamilton J.P., Kanamori H., McCombie W.R.,
RA Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S., Childs K.L.,
RA Davidson R.M., Lin H., Quesada-Ocampo L., Vaillancourt B., Sakai H.,
RA Lee S.S., Kim J., Numa H., Itoh T., Buell C.R., Matsumoto T.;
RT "Improvement of the Oryza sativa Nipponbare reference genome using next
RT generation sequence and optical map data.";
RL Rice 6:4-4(2013).
RN [6]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
RC STRAIN=cv. Nipponbare;
RX PubMed=12869764; DOI=10.1126/science.1081288;
RG The rice full-length cDNA consortium;
RT "Collection, mapping, and annotation of over 28,000 cDNA clones from
RT japonica rice.";
RL Science 301:376-379(2003).
RN [7]
RP NOMENCLATURE.
RX PubMed=18221561; DOI=10.1186/1471-2164-9-44;
RA Wang D., Guo Y., Wu C., Yang G., Li Y., Zheng C.;
RT "Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice.";
RL BMC Genomics 9:44-44(2008).
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=3;
CC Name=1;
CC IsoId=Q5NAW2-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q5NAW2-2; Sequence=VSP_013559;
CC Name=3;
CC IsoId=Q5NAW2-3; Sequence=VSP_013560;
CC -!- MISCELLANEOUS: [Isoform 2]: May be due to intron retention.
CC {ECO:0000305}.
CC -!- MISCELLANEOUS: [Isoform 3]: May be due to intron retention.
CC {ECO:0000305}.
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DR EMBL; AY573063; AAT35591.1; -; mRNA.
DR EMBL; AY620413; AAT28673.1; -; mRNA.
DR EMBL; AP002525; BAD81401.1; -; Genomic_DNA.
DR EMBL; AP002525; BAD81402.1; -; Genomic_DNA.
DR EMBL; AP008207; BAF04551.1; -; Genomic_DNA.
DR EMBL; AP014957; BAS71408.1; -; Genomic_DNA.
DR EMBL; AK111633; -; NOT_ANNOTATED_CDS; mRNA.
DR EMBL; AK111727; -; NOT_ANNOTATED_CDS; mRNA.
DR EMBL; AK111903; -; NOT_ANNOTATED_CDS; mRNA.
DR RefSeq; XP_015651248.1; XM_015795762.1. [Q5NAW2-1]
DR AlphaFoldDB; Q5NAW2; -.
DR STRING; 4530.OS01T0258700-01; -.
DR PaxDb; Q5NAW2; -.
DR PRIDE; Q5NAW2; -.
DR EnsemblPlants; Os01t0258700-01; Os01t0258700-01; Os01g0258700. [Q5NAW2-1]
DR GeneID; 4326236; -.
DR Gramene; Os01t0258700-01; Os01t0258700-01; Os01g0258700. [Q5NAW2-1]
DR KEGG; osa:4326236; -.
DR eggNOG; KOG1677; Eukaryota.
DR HOGENOM; CLU_033292_1_1_1; -.
DR InParanoid; Q5NAW2; -.
DR OMA; AYTGPYL; -.
DR OrthoDB; 625016at2759; -.
DR Proteomes; UP000000763; Chromosome 1.
DR Proteomes; UP000059680; Chromosome 1.
DR ExpressionAtlas; Q5NAW2; baseline and differential.
DR Genevisible; Q5NAW2; OS.
DR GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR GO; GO:0003729; F:mRNA binding; IBA:GO_Central.
DR InterPro; IPR000571; Znf_CCCH.
DR InterPro; IPR036855; Znf_CCCH_sf.
DR Pfam; PF00642; zf-CCCH; 5.
DR SMART; SM00356; ZnF_C3H1; 5.
DR SUPFAM; SSF90229; SSF90229; 5.
DR PROSITE; PS50103; ZF_C3H1; 5.
PE 2: Evidence at transcript level;
KW Alternative splicing; DNA-binding; Metal-binding; Nucleus;
KW Reference proteome; Repeat; Zinc; Zinc-finger.
FT CHAIN 1..476
FT /note="Zinc finger CCCH domain-containing protein 6"
FT /id="PRO_0000213922"
FT ZN_FING 59..87
FT /note="C3H1-type 1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00723"
FT ZN_FING 108..136
FT /note="C3H1-type 2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00723"
FT ZN_FING 153..181
FT /note="C3H1-type 3"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00723"
FT ZN_FING 307..335
FT /note="C3H1-type 4"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00723"
FT ZN_FING 353..381
FT /note="C3H1-type 5"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00723"
FT REGION 1..57
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 290..309
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 456..476
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 290..304
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 457..476
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 1..269
FT /note="Missing (in isoform 3)"
FT /evidence="ECO:0000303|Ref.1"
FT /id="VSP_013560"
FT VAR_SEQ 1..29
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:12869764"
FT /id="VSP_013559"
FT CONFLICT 158
FT /note="E -> K (in Ref. 6; AK111903)"
FT /evidence="ECO:0000305"
FT CONFLICT 386
FT /note="S -> G (in Ref. 6; AK111727)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 476 AA; 49835 MW; 46F41CB2DC3D6A52 CRC64;
MEQPHAAAAA AGGGEGEGGA SPDTGLEGPM WRMGLGGGGG GGGGGGGGDG DAAGRLPERP
GEEDCVYYLR TGACGFGDRC RYNHPRDRGG TEFGGGARNA AALDYPERAG QPICEYYMKT
GTCKFGTNCK YHHPKQDGAV LPVMLNNSGF PIRLGEKECS YYMKTGQCKF GTTCKFHHPE
FGGVPMTPGI YPPLQSPSIA SPHPYASLAN WQMGRPPVVP GSYIPGSYTP MMLSSGMIPL
QGWSPYPASV NPVVSGGAQQ NVQAGPVYGM GHHGSSSTIA YGGPYVPYAS STGQSSNNQQ
EHGFPERPGQ PDCQYYMRTG DCKFGATCKY HHPRELSAPK SGYMVNSLCL PLRPGAQPCA
YYAQNGYCRY GVACKYDHPM GTLGYSPSAL PLSDMPIAPY PIGFSIATLA PSSPSPDLRP
EYISTKDQSV NQVTSPVAAS EPVGSILPKG VFPADTMMRA QTNTTSGGSS SPGGGR
