LOCUS       NM_001310016            2938 bp    mRNA    linear   ROD 23-FEB-2022
DEFINITION  Mus musculus predicted gene, 45927 (Gm45927), transcript variant 1,
            mRNA.
ACCESSION   NM_001310016
VERSION     NM_001310016.1
KEYWORDS    RefSeq.
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 2938)
  AUTHORS   Kunarso G, Wong KY, Stanton LW and Lipovich L.
  TITLE     Detailed characterization of the mouse embryonic stem cell
            transcriptome reveals novel genes and intergenic splicing
            associated with pluripotency
  JOURNAL   BMC Genomics 9, 155 (2008)
   PUBMED   18400104
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2938)
  AUTHORS   Ng P, Wei CL, Sung WK, Chiu KP, Lipovich L, Ang CC, Gupta S, Shahab
            A, Ridwan A, Wong CH, Liu ET and Ruan Y.
  TITLE     Gene identification signature (GIS) analysis for transcriptome
            characterization and genome annotation
  JOURNAL   Nat Methods 2 (2), 105-111 (2005)
   PUBMED   15782207
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC161600.6.
            
            Summary: This locus represents naturally occurring readthrough
            transcription between the neighboring Clk2 (CDC-like kinase 2) and
            Scamp3 (secretory carrier membrane protein 3) genes on chromosome
            3. The readthrough transcript encodes a fusion protein that shares
            sequence identity with each individual gene product. Alternative
            splicing results in multiple transcript variants encoding different
            isoforms. [provided by RefSeq, Jun 2015].
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (1).
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: EU599046.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            readthrough transcript :: includes exons from GeneID 12748, 24045
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-312               AC161600.6         158587-158898
            313-482             AC161600.6         160827-160996
            483-711             AC161600.6         162487-162715
            712-799             AC161600.6         163407-163494
            800-866             AC161600.6         163841-163907
            867-983             AC161600.6         164085-164201
            984-1150            AC161600.6         167169-167335
            1151-1245           AC161600.6         167989-168083
            1246-1375           AC161600.6         168737-168866
            1376-1458           AC161600.6         168950-169032
            1459-1538           AC161600.6         169184-169263
            1539-1629           AC161600.6         169437-169527
            1630-1707           AC161600.6         171782-171859
            1708-1836           AC161600.6         172887-173015
            1837-1957           AC161600.6         173109-173229
            1958-2086           AC161600.6         174044-174172
            2087-2246           AC161600.6         174521-174680
            2247-2348           AC161600.6         174967-175068
            2349-2466           AC161600.6         175718-175835
            2467-2938           AC161600.6         176091-176562
FEATURES             Location/Qualifiers
     source          1..2938
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="3"
                     /map="3"
     gene            1..2938
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /note="predicted gene, 45927"
                     /db_xref="GeneID:105943584"
                     /db_xref="MGI:MGI:5825564"
     exon            1..312
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     CDS             313..2613
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /note="isoform 1 is encoded by transcript variant 1;
                     Clk2-scamp3 readthrough"
                     /codon_start=1
                     /product="uncharacterized protein LOC105943584 isoform 1"
                     /protein_id="NP_001296945.1"
                     /db_xref="GeneID:105943584"
                     /db_xref="MGI:MGI:5825564"
                     /translation="MPHPRRYHSSERGSRGSYHEHYQSRKHKRRRSRSWSSSSDRTRR
                     RRREDSYHVRSRSSYDDHSSDRRLYDRRYCGSYRRNDYSRDRGEAYYDTDFRQSYEYH
                     RENSSYRSQRSSRRKHRRRRRRSRTFSRSSSQHSSRRAKSVEDDAEGHLIYHVGDWLQ
                     ERYEIVSTLGEGTFGRVVQCVDHRRGGTQVALKIIKNVEKYKEAARLEINVLEKINEK
                     DPDNKNLCVQMFDWFDYHGHMCISFELLGLSTFDFLKDNNYLPYPIHQVRHMAFQLCQ
                     AVKFLHDNKLTHTDLKPENILFVNSDYELTYNLEKKRDERSVKSTAVRVVDFGSATFD
                     HEHHSTIVSTRHYRAPEVILELGWSQPCDVWSIGCIIFEYYVGFTLFQTHDNREHLAM
                     MERILGPVPSRMIRKTRKQKYFYRGRLDWDENTSAGRYVRENCKPLRDPAVIQHRPSQ
                     QYATLDVYNPFENREPPPAYEPPAPAPAPLPPPSAPSVQSSRKLSPTEPRNYGSYSTQ
                     ASAAAATAELLKKQEELNRKAEELDRRERELQHVALGGAGTRQNNWPPLPSFCPVKPC
                     FFQDISMEIPQEFQKTVSTMYYLWMCSTLALLLNFFACLARFCVDTGSGSGFGLSMLW
                     LLLFTPCSFVCWYRPMYKAFRSDSSFNFFVFFFIFFVQDVFFVLQAIGIPGWGFSGWV
                     TALVVVGSKPAVAVLMLLVALLFTGIAVLGIVMLKRIHSLYRQTGASFQKAQQEFAAG
                     VFSNPAVRTAAANAAAGAAENAFRAP"
     exon            313..482
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            483..711
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            712..799
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            800..866
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            867..983
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            984..1150
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            1151..1245
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            1246..1375
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            1376..1458
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            1459..1538
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            1539..1629
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            1630..1707
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            1708..1836
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            1837..1957
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            1958..2086
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            2087..2246
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            2247..2348
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            2349..2466
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
     exon            2467..2938
                     /gene="Gm45927"
                     /gene_synonym="Clk2-scamp3; TU52"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gcgtctgtgc gtgcgtgctc gctcacggcg gcggcggcgg cggagcggag aggccagagc
       61 cggagaccga gctgggatcg ggccccgggc gggggcggtg cgagaggcgc cgagcggatc
      121 ctgggggcgg ggacggagcc cgggcgggcg ggactggagc agagcccggg aacggggcgg
      181 gaggtcccag ggccccgggt tggggggtgg aaccgcactt cgtcgccgcg ggggtgccgg
      241 gactccggcc gcagtgccgc cgccatcacg gacttcctgt gggacaagcg cacgggcctc
      301 gccgccagaa cgatgcccca tccccgaagg taccattcct cagagcgagg tagccggggg
      361 agttaccacg aacactatca gagccgaaag cataagcgaa gaagaagtcg ctcctggtca
      421 agtagcagtg accggacaag gcggcggcgg agggaggaca gctaccacgt tcggtcccga
      481 agcagctatg atgaccattc gtccgatcgg cggctgtacg atcggcggta ctgtggcagc
      541 tacaggcgca atgactacag ccgggacaga ggggaggctt actacgacac agactttcgg
      601 cagtcctatg aataccatcg agagaacagc agttaccgaa gccagcgcag cagccgaagg
      661 aaacacagaa ggcggaggag acggagccgg acattcagcc gctcatcttc acagcacagc
      721 agccggagag ccaagagtgt agaggacgac gctgagggcc acctcatcta ccacgtcggg
      781 gactggctac aagagcgata tgaaattgta agcaccttag gagaagggac cttcggccga
      841 gttgtgcagt gtgtggacca tcgcaggggc ggaacacaag ttgccctgaa gatcattaag
      901 aatgtggaga agtacaagga agcagcccga ctagaaatca acgtgctgga gaaaatcaat
      961 gagaaagatc ctgacaacaa gaacctctgt gtccagatgt ttgactggtt tgactaccat
     1021 ggccacatgt gtatctcctt tgagcttctg ggccttagca ccttcgattt cctcaaagac
     1081 aacaactacc tgccctaccc catccaccaa gtgcgccaca tggccttcca gctctgccag
     1141 gccgtcaagt tcctccatga taacaagttg acacatacgg acctcaaacc tgaaaatatt
     1201 ctgtttgtga attcagacta cgaactcacc tacaacctag agaagaagcg agatgagcgc
     1261 agtgtaaaga gcacagccgt gcgggtggtg gacttcggca gtgccacctt tgaccacgaa
     1321 caccatagca ccattgtctc cactcgccat taccgagccc ccgaggtcat cctggagttg
     1381 ggctggtcac agccatgcga tgtatggagc ataggctgca tcatctttga gtactacgtt
     1441 ggcttcaccc tcttccagac ccatgacaac agagagcatc tagccatgat ggaaaggatc
     1501 ctgggtcctg tcccttctcg gatgatcaga aagacaagaa aacagaaata tttttatcgg
     1561 ggtcgcctgg attgggatga gaacacctca gccgggcgct acgttcgtga gaactgcaaa
     1621 cctctgcggg acccagctgt gatccagcac cgacccagcc agcagtatgc cacgctggac
     1681 gtctacaacc cctttgagaa ccgagagccc ccaccagcct acgagcctcc tgctccagcc
     1741 ccagcacctc taccgccacc ctcagctccc tctgtacagt cctcaagaaa gctcagcccc
     1801 acagagccca ggaactacgg ctcctacagc acccaggcct cagctgcagc ggccactgct
     1861 gagctgctga agaagcagga ggaactcaac cgcaaggcag aggagttgga ccgccgggag
     1921 cgagaactgc agcatgtcgc cctgggtggt gcaggcactc gacagaacaa ctggcctccc
     1981 ctaccgtctt tttgccctgt aaagccttgc tttttccaag acatctctat ggagataccc
     2041 caagaatttc agaagacggt gtccaccatg tactacctct ggatgtgcag cactctggct
     2101 cttctcctga acttcttcgc ctgcctggcc aggttctgtg tggacaccgg cagtggctca
     2161 ggctttgggc tgtctatgct ctggctgctc cttttcactc cctgctcctt tgtctgctgg
     2221 taccgcccga tgtataaggc tttccggagt gatagttcat tcaatttctt cgtttttttc
     2281 ttcattttct tcgtccagga tgtgttcttt gtcctccagg ccattggcat cccagggtgg
     2341 ggcttcagcg gctgggtgac tgctctggtg gtggtgggat ccaaacctgc cgtggcggtg
     2401 ctcatgctgc tcgtcgccct gctcttcacc ggcatcgcag tgctgggaat cgtgatgctg
     2461 aagcggatcc actccctgta ccgccaaacg ggtgccagct ttcagaaggc ccagcaagaa
     2521 tttgctgctg gtgtcttctc caaccctgcg gttcgaactg ctgctgccaa tgcagctgcc
     2581 ggagctgctg aaaatgcctt cagggcccct tgacccctgc tgcacccgct gggatgccct
     2641 gggcctgtca cctgtgggaa ccaagatagt ccctatccct gaagtctctg ggattcaggg
     2701 agccatcacc acttggtgac ttctatgggg ctcttcattc cacagccatg actttaatcc
     2761 tgacttgagg tgtggagagc ccgctgtgac tcagtcatta tttgcctttt atctcccatc
     2821 tggccacact gctgccgcca cctctcacac aaccccaacc ccagtttcct tctgctgtgc
     2881 caaggatgtc ttcttccgtt atttaaatta aagaaaaaaa agtgtaactg gaactcac
//
