LOCUS       NM_175461               4668 bp    mRNA    linear   ROD 04-JUN-2024
DEFINITION  Mus musculus family with sequence similarity 78, member B (Fam78b),
            transcript variant 2, mRNA.
ACCESSION   NM_175461
VERSION     NM_175461.4
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 4668)
  AUTHORS   Katayama,S., Tomaru,Y., Kasukawa,T., Waki,K., Nakanishi,M.,
            Nakamura,M., Nishida,H., Yap,C.C., Suzuki,M., Kawai,J., Suzuki,H.,
            Carninci,P., Hayashizaki,Y., Wells,C., Frith,M., Ravasi,T.,
            Pang,K.C., Hallinan,J., Mattick,J., Hume,D.A., Lipovich,L.,
            Batalov,S., Engstrom,P.G., Mizuno,Y., Faghihi,M.A., Sandelin,A.,
            Chalk,A.M., Mottagui-Tabar,S., Liang,Z., Lenhard,B. and
            Wahlestedt,C.
  CONSRTM   RIKEN Genome Exploration Research Group; Genome Science Group
            (Genome Network Project Core Group); FANTOM Consortium
  TITLE     Antisense transcription in the mammalian transcriptome
  JOURNAL   Science 309 (5740), 1564-1566 (2005)
   PUBMED   16141073
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CB575012.1, BC066094.1 and AC158767.3.
            
            On May 16, 2009 this sequence version replaced NM_175461.3.
            
            Transcript Variant: This variant (2) differs in the 3' UTR compared
            to variant 1. All three variants encode the same protein.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC066094.1, SRR7652917.434992.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            NMD candidate          :: translation inferred from conservation
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-430               CB575012.1         151-580
            431-3700            BC066094.1         259-3528
            3701-4668           AC158767.3         103978-104945
FEATURES             Location/Qualifiers
     source          1..4668
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="1"
                     /map="1 74.38 cM"
     gene            1..4668
                     /gene="Fam78b"
                     /gene_synonym="C030014K22Rik; C030020L09Rik"
                     /note="family with sequence similarity 78, member B"
                     /db_xref="GeneID:226610"
                     /db_xref="MGI:MGI:2443050"
     exon            1..412
                     /gene="Fam78b"
                     /gene_synonym="C030014K22Rik; C030020L09Rik"
                     /inference="alignment:Splign:2.1.0"
     CDS             150..935
                     /gene="Fam78b"
                     /gene_synonym="C030014K22Rik; C030020L09Rik"
                     /codon_start=1
                     /product="protein FAM78B"
                     /protein_id="NP_780670.2"
                     /db_xref="CCDS:CCDS35764.1"
                     /db_xref="GeneID:226610"
                     /db_xref="MGI:MGI:2443050"
                     /translation="MGCIQSITCKARIRRENIVVYDVCATIDQCPTRIEETSPIVLRY
                     KTPYFKASARVVMPPIPRHETWVVGWIQACNQMEFFNTYSDLGMSSWELPDLREGRVK
                     AISDSDGVSYPWYGNTTETVTLVGPTNKISRFSVSMNDNFYPSVTWAVPVSDSNVPLL
                     TRIKRDQSFTTWLVAMNTTTKEKIILQTIKWRMRVDIEVDPLQLLGQRARLVGRTQQE
                     QPRILSRMEPIPPNALVKPNANDAQVLMWRPKRGPPLVVIPPK"
     exon            413..1343
                     /gene="Fam78b"
                     /gene_synonym="C030014K22Rik; C030020L09Rik"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1136..1141
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Fam78b"
                     /gene_synonym="C030014K22Rik; C030020L09Rik"
                     /note="hexamer: AATAAA"
     polyA_site      1157
                     /gene="Fam78b"
                     /gene_synonym="C030014K22Rik; C030020L09Rik"
                     /note="major polyA site"
     exon            1344..4668
                     /gene="Fam78b"
                     /gene_synonym="C030014K22Rik; C030020L09Rik"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4331..4336
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Fam78b"
                     /gene_synonym="C030014K22Rik; C030020L09Rik"
                     /note="hexamer: ATTAAA"
     regulatory      4349..4354
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Fam78b"
                     /gene_synonym="C030014K22Rik; C030020L09Rik"
                     /note="hexamer: AATACA"
     polyA_site      4350
                     /gene="Fam78b"
                     /gene_synonym="C030014K22Rik; C030020L09Rik"
     polyA_site      4375
                     /gene="Fam78b"
                     /gene_synonym="C030014K22Rik; C030020L09Rik"
                     /note="major polyA site"
ORIGIN      
        1 gcggcggcgg ctcctcgctc ttaggcgcta gctgagctgg accgggagcg agcggcgcgt
       61 cgccatgccg gcgtgacggg tgcccgcggc tgcccgcgcc gggcccccgc gctgccccac
      121 gccgcgccgc gccggcgccg ggcggcagga tgggctgtat ccaaagcatc acctgcaagg
      181 cgcggatccg gcgcgagaac atcgtggtgt acgatgtgtg cgccaccatc gaccagtgcc
      241 ccacgcgcat cgaggagacc tcgcccatcg tcctgcgcta caagacccct tacttcaaag
      301 cctcggcccg tgtggtcatg ccccccatcc cccgccacga gacctgggtg gtgggctgga
      361 tccaggcatg caaccagatg gagttcttca acacctacag cgacctgggc atgtcaagct
      421 gggaactgcc tgacttgagg gaagggagag taaaagccat cagtgactca gacggggtga
      481 gctacccatg gtacgggaac acgacagaga ctgtgaccct ggttggcccc accaacaaga
      541 tctccaggtt ctccgtcagc atgaatgata acttctaccc cagcgtgaca tgggcagtgc
      601 cagtgagtga cagcaatgtg ccactgctca caaggatcaa gagggaccaa agttttacca
      661 catggctggt ggccatgaac accaccacca aggaaaagat catactgcag accatcaaat
      721 ggaggatgag agtggacatt gaagtggacc ctcttcagct gttggggcag cgggcccggc
      781 tagtgggcag gactcagcag gagcagcccc ggatcctgag ccggatggag cccatccccc
      841 ctaacgcact agtgaagccc aatgccaacg atgcccaggt cctcatgtgg aggcccaagc
      901 ggggaccacc tctggttgtg atacctccta agtaaaagca gactgcccaa ctgtgtgtgg
      961 aacacatgcc actgagaccc gcagtggggt gaccaggggt ggcaggagcc aaactgagtt
     1021 tctgagccaa agcagaccct cttggtgtgc cagcctttgc agctacttgt gatgagtaca
     1081 gctgttcctt gggcggtaga accataaccc ttaggaaaag ccccttcctc ttaggaataa
     1141 agaaaccact gatttgatag acttgctctg attaccgtgc aagtagccat attttggagc
     1201 tgaccaggac gattctttta tttgaactat tgaccatttc tttcctgtga gacgcagggg
     1261 atggaaatga aactaaacgg tgcctgtggc agatgctgct tcccaaccaa ttagaagcga
     1321 gagtgaaaac atccacacca ggtgtctcct agtaggacaa ggcaagccca cccagcaagc
     1381 agaaccacat ggcaagacgc tgagaaggag ggatatgagc attggctggt ggctccagaa
     1441 gctgatgccc tggacagctg actccctatt taacaagagt gccatcttgc cagtctcttc
     1501 actaccctcc tatcctgtga tcagtacctc ctatccccaa cacgtgtgtc caaccaggcc
     1561 agctggttgg ctcatggggg agcttcattg aactggaagt tgtgcctgct gcaccttttg
     1621 tgtgtggaaa gattgagttc acctagacct cctgctcatc ccctccctcc acatgaagcc
     1681 tcccaaggac aaggctggtc atcctggact gaagagaccc cacacacagc ccagccctgg
     1741 ctcccaagcc tgccacccaa ccccacattt ttgggtgtga gaatatatat ctccccttct
     1801 cctctctctt ctctatgtgg atagccaatg tcaatcatca cctgaggtgt ctctaaggtc
     1861 tttggaaggc aactatttgc cctaccatgg acagacttgg tgacttcaag atgaccaaga
     1921 gcagcattta tattgccagg atcagtaaaa tgagagcaga acttccccaa ccgggcaaaa
     1981 gtgctgtatg ttgttctagt gtttgtttta tttattagta tactccccta tttatttatt
     2041 tatttatgga acctgtattt attatatatc agaaaatctt cttccatctt tcaaacatca
     2101 gctccaaatt tgtcttgttg gaccccaccc ccacccccca cagagcacag taaacaattc
     2161 ctctttgaag ccacaaaaaa agagggaatt tcttctccct agtcccaaat acttctaccc
     2221 tagccagatt tttcaaccca aaataagatc agaatctacc agctaggtgt aagctgtata
     2281 accacgcaaa ccagcacagg ctccgctgtc tggacagaaa cagtcttcca acccttgctt
     2341 ttacatggtt tttccttcca ctccttcaca aactcatgca agactaacca cctgatttcc
     2401 agcctgacta ctaagactgg gctcctcctt ctgctctggt gcagaatgtt tgacaccaga
     2461 tgcacattag aatctatgtt gggcgcttaa agccacctgc ctggtttcca cctcaatgtg
     2521 cccatagcag aatctctgag tggctgagca gcagagatct tcttagttgc ccagattact
     2581 ctaacttgta aatgtagttg ataaaaaaat tttttttcaa ctgtcttctt catccccagc
     2641 cacctccaag atcccttcct cctttagttc gcaagcttcc tctggactcc ccatttctcc
     2701 agtccccttt cttcatgaaa tcttcccctc gttaagcacc atcaacatga acagacccca
     2761 aagaggtgac tggtcctgag agtcacacca gaagccaatg cctgcacttg cctctcttag
     2821 aagcaaaagc ttgttccctg cccagattca ccttccatct gcactctccc catgacacat
     2881 gcctccctcc aaaaggttaa agattgatat ggttattcct ggtcctgcat cccaatctta
     2941 aggaaaagct cactccagtc tttataagcc aagggttggc tgtttctgca gagcaacatg
     3001 aaatacctga gggtaatttc ctggtaacag gaagggttat cttgtcccca aaacagtccc
     3061 ttacccaatg acctgatagc aacccactag catacagatg atagatgact gagacttctc
     3121 accctcatgt tgacaagttc tcaaacgatg aatataagtg aaggtgtgtg tgtgtgtgtg
     3181 tgtgtgtgtg tgtgtgtgtg tgtgtgtgta ctgacagttt tggcatttac ttgagaacaa
     3241 tcaagaactt gtgctgtctt tcactcagtg gattcaattc actcctttcc tcaaagaccc
     3301 aagtgaattc catagtagtg cttcatacag aatggtgtaa tgtctgagaa ctgccgggca
     3361 tgttagagac tgtatatgtt gtattcacaa gagagtgccc aagatagaaa gaattcattt
     3421 tcatattcca cctccagcat ctaccaggtt cccagagcaa gtagatttct cctgcattca
     3481 tagcaccatg ccttcttgcc ccattaatca gactgtcctg caccaagtcc catctctcag
     3541 ggtcctgctc tctgataggc aacagttcag tcagtgggtg ctaaagagtt gagtgttaca
     3601 cttcttgggt gacctttacc ttttaattgg ggctatagac aatgccttaa tctgaaggag
     3661 tagcttgaat gctgggaatt tcaggtgcag aagtgggcca gtaagagaga ttagtttttt
     3721 tcttaggagg gcattttaga gcctcctctt ccccataccc atctttaaag tcagctcata
     3781 catacatgag cacaaacaag cacacttacc tacatctaca tcccataatt ttggaatacc
     3841 tcccttgcat tggccctatc tttaaacata aaaataaatt agaaatgaac cagctaaatt
     3901 aattcaaacc tcattgggaa atgcagccta ttttttcacc ggccaccagc catctggtct
     3961 accccaccct gttccatttc cttcctgctc cttctctttt cggctactgg cctatcagtt
     4021 aacttatgtg taaatgtcct ttgctcttcc cttgcttccc cctaaatgta tttccccaca
     4081 cccttggact tgtgttgttt tcggtgttgt gaaggacaga agtggaggct aagagcatga
     4141 gcatgtacgt atgtcactga agacagagaa gccaggtatt ctgctacagt ttgaagaata
     4201 acgccacaaa ggaagaggtg aaagccggct ctgcagagtg ccttaaaaat gactttaatt
     4261 aggaaattcc gagtcgtcag tctttggatg ttacataaac tcaatggatg ttgcatttca
     4321 cttctctggg attaaaaaaa aaaagttaaa tacagtatgt attcaacaat gataatcaag
     4381 tatattttct ctttaatttg gttcttaaaa gatttagtac cgaggaggtc tgggattctg
     4441 ggaccggaga gatggctcag gggttaagag aacttgctac tacttttcaa ggggaccaga
     4501 gttcatttcc cagcacctat gtcaggtggt cggtccatag ctacctgtag cgcccactag
     4561 ctctgtcatt tatgtagaca catatgcata cacccacatg cacggggagg tggggggaag
     4621 gaaattggga gggagataca catactcata aataaaataa aacctttt
//
