ID   Q9CS15_MOUSE            Unreviewed;       232 AA.
AC   Q9CS15;
DT   01-JUN-2001, integrated into UniProtKB/TrEMBL.
DT   01-JUN-2001, sequence version 1.
DT   24-JAN-2024, entry version 128.
DE   RecName: Full=UPF3 domain-containing protein {ECO:0000259|Pfam:PF03467};
DE   Flags: Fragment;
GN   Name=Upf3b {ECO:0000313|MGI:MGI:1915384};
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 {ECO:0000313|EMBL:BAB31954.1};
RN   [1] {ECO:0000313|EMBL:BAB31954.1}
RP   NUCLEOTIDE SEQUENCE.
RC   STRAIN=C57BL/6J {ECO:0000313|EMBL:BAB31954.1};
RC   TISSUE=In vitro fertilized eggs {ECO:0000313|EMBL:BAE36799.1}, and
RC   Whole body {ECO:0000313|EMBL:BAB31954.1};
RX   PubMed=10349636; DOI=10.1016/S0076-6879(99)03004-9;
RA   Carninci P., Hayashizaki Y.;
RT   "High-efficiency full-length cDNA cloning.";
RL   Methods Enzymol. 303:19-44(1999).
RN   [2] {ECO:0000313|EMBL:BAB31954.1}
RP   NUCLEOTIDE SEQUENCE.
RC   STRAIN=C57BL/6J {ECO:0000313|EMBL:BAB31954.1};
RC   TISSUE=In vitro fertilized eggs {ECO:0000313|EMBL:BAE36799.1}, and
RC   Whole body {ECO:0000313|EMBL:BAB31954.1};
RX   PubMed=11042159; DOI=10.1101/gr.145100;
RA   Carninci P., Shibata Y., Hayatsu N., Sugahara Y., Shibata K., Itoh M.,
RA   Konno H., Okazaki Y., Muramatsu M., Hayashizaki Y.;
RT   "Normalization and subtraction of cap-trapper-selected cDNAs to prepare
RT   full-length cDNA libraries for rapid discovery of new genes.";
RL   Genome Res. 10:1617-1630(2000).
RN   [3] {ECO:0000313|EMBL:BAB31954.1}
RP   NUCLEOTIDE SEQUENCE.
RC   STRAIN=C57BL/6J {ECO:0000313|EMBL:BAB31954.1};
RC   TISSUE=In vitro fertilized eggs {ECO:0000313|EMBL:BAE36799.1}, and
RC   Whole body {ECO:0000313|EMBL:BAB31954.1};
RX   PubMed=11076861; DOI=10.1101/gr.152600;
RA   Shibata K., Itoh M., Aizawa K., Nagaoka S., Sasaki N., Carninci P.,
RA   Konno H., Akiyama J., Nishi K., Kitsunai T., Tashiro H., Itoh M., Sumi N.,
RA   Ishii Y., Nakamura S., Hazama M., Nishine T., Harada A., Yamamoto R.,
RA   Matsumoto H., Sakaguchi S., Ikegami T., Kashiwagi K., Fujiwake S.,
RA   Inoue K., Togawa Y., Izawa M., Ohara E., Watahiki M., Yoneda Y.,
RA   Ishikawa T., Ozawa K., Tanaka T., Matsuura S., Kawai J., Okazaki Y.,
RA   Muramatsu M., Inoue Y., Kira A., Hayashizaki Y.;
RT   "RIKEN integrated sequence analysis (RISA) system--384-format sequencing
RT   pipeline with 384 multicapillary sequencer.";
RL   Genome Res. 10:1757-1771(2000).
RN   [4] {ECO:0000313|EMBL:BAB31954.1}
RP   NUCLEOTIDE SEQUENCE.
RC   STRAIN=C57BL/6J {ECO:0000313|EMBL:BAB31954.1};
RC   TISSUE=Whole body {ECO:0000313|EMBL:BAB31954.1};
RA   Adachi J., Aizawa K., Akahira S., Akimura T., Arai A., Aono H., Arakawa T.,
RA   Bono H., Carninci P., Fukuda S., Fukunishi Y., Furuno M., Hanagaki T.,
RA   Hara A., Hayatsu N., Hiramoto K., Hiraoka T., Hori F., Imotani K.,
RA   Ishii Y., Itoh M., Izawa M., Kasukawa T., Kato H., Kawai J., Kojima Y.,
RA   Konno H., Kouda M., Koya S., Kurihara C., Matsuyama T., Miyazaki A.,
RA   Nishi K., Nomura K., Numazaki R., Ohno M., Okazaki Y., Okido T., Owa C.,
RA   Saito H., Saito R., Sakai C., Sakai K., Sano H., Sasaki D., Shibata K.,
RA   Shibata Y., Shinagawa A., Shiraki T., Sogabe Y., Suzuki H., Tagami M.,
RA   Tagawa A., Takahashi F., Tanaka T., Tejima Y., Toya T., Yamamura T.,
RA   Yasunishi A., Yoshida K., Yoshino M., Muramatsu M., Hayashizaki Y.;
RL   Submitted (AUG-2000) to the EMBL/GenBank/DDBJ databases.
RN   [5] {ECO:0000313|EMBL:BAB31954.1}
RP   NUCLEOTIDE SEQUENCE.
RC   STRAIN=C57BL/6J {ECO:0000313|EMBL:BAB31954.1};
RC   TISSUE=In vitro fertilized eggs {ECO:0000313|EMBL:BAE36799.1}, and
RC   Whole body {ECO:0000313|EMBL:BAB31954.1};
RX   PubMed=11217851; DOI=10.1038/35055500;
RG   The RIKEN Genome Exploration Research Group Phase II Team and the FANTOM Consortium;
RT   "Functional annotation of a full-length mouse cDNA collection.";
RL   Nature 409:685-690(2001).
RN   [6] {ECO:0000313|EMBL:BAB31954.1}
RP   NUCLEOTIDE SEQUENCE.
RC   STRAIN=C57BL/6J {ECO:0000313|EMBL:BAB31954.1};
RC   TISSUE=In vitro fertilized eggs {ECO:0000313|EMBL:BAE36799.1}, and
RC   Whole body {ECO:0000313|EMBL:BAB31954.1};
RX   PubMed=12466851; DOI=10.1038/nature01266;
RG   The FANTOM Consortium and the RIKEN Genome Exploration Research Group Phase I and II Team;
RT   "Analysis of the mouse transcriptome based on functional annotation of
RT   60,770 full-length cDNAs.";
RL   Nature 420:563-573(2002).
RN   [7] {ECO:0000313|EMBL:BAE36799.1}
RP   NUCLEOTIDE SEQUENCE.
RC   STRAIN=C57BL/6J {ECO:0000313|EMBL:BAE36799.1};
RC   TISSUE=In vitro fertilized eggs {ECO:0000313|EMBL:BAE36799.1};
RA   Arakawa T., Carninci P., Fukuda S., Hashizume W., Hayashida K., Hori F.,
RA   Iida J., Imamura K., Imotani K., Itoh M., Kanagawa S., Kawai J., Kojima M.,
RA   Konno H., Murata M., Nakamura M., Ninomiya N., Nishiyori H., Nomura K.,
RA   Ohno M., Sakazume N., Sano H., Sasaki D., Shibata K., Shiraki T.,
RA   Tagami M., Tagami Y., Waki K., Watahiki A., Muramatsu M., Hayashizaki Y.;
RL   Submitted (APR-2004) to the EMBL/GenBank/DDBJ databases.
RN   [8] {ECO:0000313|EMBL:BAB31954.1}
RP   NUCLEOTIDE SEQUENCE.
RC   STRAIN=C57BL/6J {ECO:0000313|EMBL:BAB31954.1};
RC   TISSUE=In vitro fertilized eggs {ECO:0000313|EMBL:BAE36799.1}, and
RC   Whole body {ECO:0000313|EMBL:BAB31954.1};
RG   The FANTOM Consortium;
RG   Riken Genome Exploration Research Group and Genome Science Group (Genome Network Project Core Group);
RT   "The Transcriptional Landscape of the Mammalian Genome.";
RL   Science 309:1559-1563(2005).
RN   [9] {ECO:0000313|EMBL:BAB31954.1}
RP   NUCLEOTIDE SEQUENCE.
RC   STRAIN=C57BL/6J {ECO:0000313|EMBL:BAB31954.1};
RC   TISSUE=In vitro fertilized eggs {ECO:0000313|EMBL:BAE36799.1}, and
RC   Whole body {ECO:0000313|EMBL:BAB31954.1};
RX   PubMed=16141073; DOI=10.1126/science.1112009;
RG   RIKEN Genome Exploration Research Group and Genome Science Group (Genome Network Project Core Group) and the FANTOM Consortium;
RT   "Antisense Transcription in the Mammalian Transcriptome.";
RL   Science 309:1564-1566(2005).
CC   -!- SIMILARITY: Belongs to the RENT3 family.
CC       {ECO:0000256|ARBA:ARBA00005991}.
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DR   EMBL; AK019989; BAB31954.1; -; mRNA.
DR   EMBL; AK162222; BAE36799.1; -; mRNA.
DR   AlphaFoldDB; Q9CS15; -.
DR   PeptideAtlas; Q9CS15; -.
DR   AGR; MGI:1915384; -.
DR   MGI; MGI:1915384; Upf3b.
DR   ChiTaRS; Upf3b; mouse.
DR   GO; GO:0034451; C:centriolar satellite; ISO:MGI.
DR   GO; GO:0005737; C:cytoplasm; IBA:GO_Central.
DR   GO; GO:0005829; C:cytosol; ISO:MGI.
DR   GO; GO:0035145; C:exon-exon junction complex; ISO:MGI.
DR   GO; GO:0043025; C:neuronal cell body; IDA:MGI.
DR   GO; GO:0005730; C:nucleolus; ISO:MGI.
DR   GO; GO:0005654; C:nucleoplasm; ISO:MGI.
DR   GO; GO:0005634; C:nucleus; IDA:MGI.
DR   GO; GO:0003729; F:mRNA binding; ISO:MGI.
DR   GO; GO:0007420; P:brain development; IMP:MGI.
DR   GO; GO:0031175; P:neuron projection development; IMP:MGI.
DR   GO; GO:0000184; P:nuclear-transcribed mRNA catabolic process, nonsense-mediated decay; IDA:MGI.
DR   GO; GO:1905746; P:positive regulation of mRNA cis splicing, via spliceosome; IMP:MGI.
DR   GO; GO:0045666; P:positive regulation of neuron differentiation; IMP:MGI.
DR   GO; GO:0045727; P:positive regulation of translation; ISO:MGI.
DR   CDD; cd12728; RRM_like_Smg4_UPF3B; 1.
DR   Gene3D; 3.30.70.330; -; 1.
DR   InterPro; IPR012677; Nucleotide-bd_a/b_plait_sf.
DR   InterPro; IPR035979; RBD_domain_sf.
DR   InterPro; IPR039722; Upf3.
DR   InterPro; IPR005120; UPF3_dom.
DR   InterPro; IPR034979; UPF3B_RRM-like.
DR   PANTHER; PTHR13112:SF1; REGULATOR OF NONSENSE TRANSCRIPTS 3B; 1.
DR   PANTHER; PTHR13112; UPF3 REGULATOR OF NONSENSE TRANSCRIPTS-LIKE PROTEIN; 1.
DR   Pfam; PF03467; Smg4_UPF3; 1.
DR   SUPFAM; SSF54928; RNA-binding domain, RBD; 1.
DR   PROSITE; PS51257; PROKAR_LIPOPROTEIN; 1.
PE   2: Evidence at transcript level;
FT   DOMAIN          51..208
FT                   /note="UPF3"
FT                   /evidence="ECO:0000259|Pfam:PF03467"
FT   REGION          1..48
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   REGION          204..232
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        34..48
FT                   /note="Basic and acidic residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        206..232
FT                   /note="Basic and acidic residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   NON_TER         232
FT                   /evidence="ECO:0000313|EMBL:BAB31954.1"
SQ   SEQUENCE   232 AA;  27675 MW;  5DF971342EB5120B CRC64;
     MKEEKDHRPK EKRVTLFTPQ GATGGCIGAT AEGAKGDDRQ DRNRDKKEAL SKVVIRRLPP
     TLTKEQLQEH LQPMPEHDYF EFFSNDTSLY PHMYARAYIN FKNQEDILLF RDRFDGYVFL
     DNKGQEYHAI VEFAPFQKAA KKKIKKRDTK VGTIEDDPEY RKFLESYATD NEKMTSTPET
     LLEEIEAKNR ELIAKRTTPL LSFLKNKQRM REEKREERRR REIERKRQRE EE
//