ID RNPC3_MOUSE Reviewed; 514 AA.
AC Q3UZ01; Q3TTZ2; Q69Z94; Q80VS9; Q91YJ1; Q9CSC1;
DT 13-NOV-2007, integrated into UniProtKB/Swiss-Prot.
DT 13-NOV-2007, sequence version 2.
DT 24-JAN-2024, entry version 134.
DE RecName: Full=RNA-binding region-containing protein 3;
DE AltName: Full=RNA-binding motif protein 40;
DE Short=RNA-binding protein 40;
GN Name=Rnpc3; Synonyms=Kiaa1839, Rbm40;
OS Mus musculus (Mouse).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae;
OC Murinae; Mus; Mus.
OX NCBI_TaxID=10090;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
RC STRAIN=C57BL/6J; TISSUE=Embryo, Skin, and Thymus;
RX PubMed=16141072; DOI=10.1126/science.1112014;
RA Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N.,
RA Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K.,
RA Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.,
RA Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R.,
RA Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T.,
RA Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A.,
RA Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B.,
RA Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M.,
RA Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S.,
RA Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E.,
RA Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D.,
RA Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M.,
RA Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H.,
RA Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V.,
RA Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S.,
RA Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H.,
RA Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N.,
RA Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F.,
RA Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G.,
RA Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z.,
RA Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C.,
RA Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y.,
RA Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S.,
RA Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K.,
RA Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R.,
RA van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H.,
RA Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M.,
RA Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C.,
RA Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S.,
RA Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K.,
RA Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M.,
RA Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C.,
RA Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A.,
RA Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.;
RT "The transcriptional landscape of the mammalian genome.";
RL Science 309:1559-1563(2005).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
RC STRAIN=Czech II, and FVB/N; TISSUE=Mammary tumor;
RX PubMed=15489334; DOI=10.1101/gr.2596504;
RG The MGC Project Team;
RT "The status, quality, and expansion of the NIH full-length cDNA project:
RT the Mammalian Gene Collection (MGC).";
RL Genome Res. 14:2121-2127(2004).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 53-514 (ISOFORM 1).
RC TISSUE=Fetal brain;
RX PubMed=15368895; DOI=10.1093/dnares/11.3.205;
RA Okazaki N., Kikuno R., Ohara R., Inamoto S., Koseki H., Hiraoka S.,
RA Saga Y., Seino S., Nishimura M., Kaisho T., Hoshino K., Kitamura H.,
RA Nagase T., Ohara O., Koga H.;
RT "Prediction of the coding sequences of mouse homologues of KIAA gene: IV.
RT The complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs
RT identified by screening of terminal sequences of cDNA clones randomly
RT sampled from size-fractionated libraries.";
RL DNA Res. 11:205-218(2004).
CC -!- FUNCTION: Participates in pre-mRNA U12-dependent splicing, performed by
CC the minor spliceosome which removes U12-type introns. U12-type introns
CC comprises less than 1% of all non-coding sequences. Binds to the 3'-
CC stem-loop of m(7)G-capped U12 snRNA (By similarity). {ECO:0000250}.
CC -!- SUBUNIT: Component of the U11/U12 snRNPs that are part of the U12-type
CC spliceosome. Found in a complex with m(7)G-capped U12 snRNA. Interacts
CC with PDCD7 (By similarity). {ECO:0000250}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q3UZ01-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q3UZ01-2; Sequence=VSP_029402;
CC -!- SEQUENCE CAUTION:
CC Sequence=AAH16603.1; Type=Erroneous initiation; Evidence={ECO:0000305};
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DR EMBL; AK013288; BAB28770.3; -; mRNA.
DR EMBL; AK134241; BAE22060.1; -; mRNA.
DR EMBL; AK161063; BAE36180.1; -; mRNA.
DR EMBL; BC016603; AAH16603.1; ALT_INIT; mRNA.
DR EMBL; BC043695; AAH43695.1; -; mRNA.
DR EMBL; AK173272; BAD32550.1; -; mRNA.
DR CCDS; CCDS17777.1; -. [Q3UZ01-1]
DR CCDS; CCDS71308.1; -. [Q3UZ01-2]
DR RefSeq; NP_001033785.1; NM_001038696.1. [Q3UZ01-1]
DR RefSeq; NP_001273944.1; NM_001287015.1. [Q3UZ01-2]
DR RefSeq; NP_080319.2; NM_026043.3. [Q3UZ01-1]
DR AlphaFoldDB; Q3UZ01; -.
DR SMR; Q3UZ01; -.
DR BioGRID; 212030; 1.
DR STRING; 10090.ENSMUSP00000089792; -.
DR iPTMnet; Q3UZ01; -.
DR PhosphoSitePlus; Q3UZ01; -.
DR EPD; Q3UZ01; -.
DR jPOST; Q3UZ01; -.
DR MaxQB; Q3UZ01; -.
DR PaxDb; 10090-ENSMUSP00000089792; -.
DR ProteomicsDB; 300316; -. [Q3UZ01-1]
DR ProteomicsDB; 300317; -. [Q3UZ01-2]
DR Pumba; Q3UZ01; -.
DR Antibodypedia; 9690; 101 antibodies from 23 providers.
DR Ensembl; ENSMUST00000092154.10; ENSMUSP00000089792.4; ENSMUSG00000027981.15. [Q3UZ01-1]
DR Ensembl; ENSMUST00000106535.2; ENSMUSP00000102145.2; ENSMUSG00000027981.15. [Q3UZ01-2]
DR Ensembl; ENSMUST00000106536.8; ENSMUSP00000102146.2; ENSMUSG00000027981.15. [Q3UZ01-1]
DR GeneID; 67225; -.
DR KEGG; mmu:67225; -.
DR UCSC; uc008rbd.1; mouse. [Q3UZ01-1]
DR UCSC; uc008rbf.1; mouse. [Q3UZ01-2]
DR AGR; MGI:1914475; -.
DR CTD; 55599; -.
DR MGI; MGI:1914475; Rnpc3.
DR VEuPathDB; HostDB:ENSMUSG00000027981; -.
DR eggNOG; KOG4206; Eukaryota.
DR GeneTree; ENSGT00530000063786; -.
DR InParanoid; Q3UZ01; -.
DR OMA; CPFGPIT; -.
DR OrthoDB; 1331467at2759; -.
DR PhylomeDB; Q3UZ01; -.
DR TreeFam; TF324298; -.
DR Reactome; R-MMU-72165; mRNA Splicing - Minor Pathway.
DR BioGRID-ORCS; 67225; 18 hits in 75 CRISPR screens.
DR ChiTaRS; Rnpc3; mouse.
DR PRO; PR:Q3UZ01; -.
DR Proteomes; UP000000589; Chromosome 3.
DR RNAct; Q3UZ01; Protein.
DR Bgee; ENSMUSG00000027981; Expressed in retinal neural layer and 272 other cell types or tissues.
DR ExpressionAtlas; Q3UZ01; baseline and differential.
DR Genevisible; Q3UZ01; MM.
DR GO; GO:0005654; C:nucleoplasm; ISO:MGI.
DR GO; GO:0005634; C:nucleus; ISS:MGI.
DR GO; GO:0005689; C:U12-type spliceosomal complex; ISS:HGNC.
DR GO; GO:0097157; F:pre-mRNA intronic binding; IBA:GO_Central.
DR GO; GO:0030626; F:U12 snRNA binding; IBA:GO_Central.
DR GO; GO:0000398; P:mRNA splicing, via spliceosome; IBA:GO_Central.
DR CDD; cd12238; RRM1_RBM40_like; 1.
DR CDD; cd12239; RRM2_RBM40_like; 1.
DR Gene3D; 3.30.70.330; -; 2.
DR Gene3D; 6.10.250.610; -; 1.
DR InterPro; IPR012677; Nucleotide-bd_a/b_plait_sf.
DR InterPro; IPR035979; RBD_domain_sf.
DR InterPro; IPR034147; RBM40_RRM1.
DR InterPro; IPR045164; RBM41/RNPC3.
DR InterPro; IPR000504; RRM_dom.
DR PANTHER; PTHR16105:SF6; RNA-BINDING REGION-CONTAINING PROTEIN 3; 1.
DR PANTHER; PTHR16105; UNCHARACTERIZED; 1.
DR Pfam; PF00076; RRM_1; 2.
DR SMART; SM00360; RRM; 2.
DR SUPFAM; SSF54928; RNA-binding domain, RBD; 2.
DR PROSITE; PS50102; RRM; 2.
PE 2: Evidence at transcript level;
KW Alternative splicing; Nucleus; Phosphoprotein; Reference proteome; Repeat;
KW RNA-binding.
FT CHAIN 1..514
FT /note="RNA-binding region-containing protein 3"
FT /id="PRO_0000311113"
FT DOMAIN 27..102
FT /note="RRM 1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00176"
FT DOMAIN 418..501
FT /note="RRM 2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00176"
FT REGION 1..26
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 106..133
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 213..282
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 337..363
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 213..229
FT /note="Pro residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 230..246
FT /note="Acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOD_RES 21
FT /note="Phosphoserine"
FT /evidence="ECO:0000250|UniProtKB:Q96LT9"
FT MOD_RES 108
FT /note="Phosphoserine"
FT /evidence="ECO:0000250|UniProtKB:Q96LT9"
FT MOD_RES 349
FT /note="Phosphoserine"
FT /evidence="ECO:0000250|UniProtKB:Q4G055"
FT VAR_SEQ 497
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:16141072"
FT /id="VSP_029402"
FT CONFLICT 41
FT /note="E -> K (in Ref. 1; BAE22060)"
FT /evidence="ECO:0000305"
FT CONFLICT 261
FT /note="M -> T (in Ref. 1; BAB28770)"
FT /evidence="ECO:0000305"
FT CONFLICT 422
FT /note="V -> E (in Ref. 1; BAE22060)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 514 AA; 57972 MW; 0FB772119ED29A0D CRC64;
MAGPEPPMPL SRGGPGSASL SPPRGDRTLL VRHLPAELTA EEKEDLLKYF GAQSVRVLSD
KGRLKHTAFA TFPNEKAAIK ALTRLHQLKL LGHTLVVEFA KEQDRVHSPC STSNTEKKKR
LDDTVENDKE KKEPDILTVE NGIAPNHGLT FPLNSCLKYM YPPPSSTILA NIVNALASVP
KFYVQVLHLM NKMNLPTPFG PITARPPMYE DYMPLHAPLP PTSPQPPEEP PLPDEDEDLS
SKESEYESSD EEDRQRMNRL MELANLQPKR PKTEKPRHVR KKRKIKDMLN IPSSASHSLH
PVLLPSDVFD QPQSVGNKKI EFNISTNMPA AFNKDLETQP NNEEENSDSP DTGLDSNTGF
GKIFPKPNLN ITEEITEDSD EIPSQFISRK ELEKGRISRE EMETLSVFRS YEPGEPNCRI
YVKNLARHVQ EKDLKFIFGR YVDFSSETQR IMFDIRLMKE GRMKGQAFVG LPNEKAAAKA
LKEANGYVLF GKPMVVQFAR SARPKQDSKE GKRK
//
