LOCUS       NM_001164422            1930 bp    mRNA    linear   ROD 31-MAY-2024
DEFINITION  Mus musculus solute carrier family 66 member 2 (Slc66a2),
            transcript variant 4, mRNA.
ACCESSION   NM_001164422
VERSION     NM_001164422.1
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 1930)
  AUTHORS   Bedogni,F. and Hevner,R.F.
  TITLE     Cell-Type-Specific Gene Expression in Developing Mouse Neocortex:
            Intermediate Progenitors Implicated in Axon Development
  JOURNAL   Front Mol Neurosci 14, 686034 (2021)
   PUBMED   34321999
  REMARK    Publication Status: Online-Only
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BY263686.1, AK153023.1 and BB728808.1.
            
            Transcript Variant: This variant (4) differs in the 5' UTR and
            lacks an in-frame exon in the middle portion of the coding region,
            compared to variant 1. The encoded isoform (b) is shorter than
            isoform a. Variants 2, 3 and 4 encode the same isoform (b).
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC008231.1, SRR1660813.90390.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-93                BY263686.1         2-94
            94-1843             AK153023.1         119-1868
            1844-1918           AK153023.1         1871-1945
            1919-1930           BB728808.1         415-426
FEATURES             Location/Qualifiers
     source          1..1930
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="18"
                     /map="18 53.37 cM"
     gene            1..1930
                     /gene="Slc66a2"
                     /gene_synonym="2310009N05Rik; 4933425L21Rik;
                     5730564E11Rik; Pqlc1"
                     /note="solute carrier family 66 member 2"
                     /db_xref="GeneID:66943"
                     /db_xref="MGI:MGI:1914193"
     exon            1..93
                     /gene="Slc66a2"
                     /gene_synonym="2310009N05Rik; 4933425L21Rik;
                     5730564E11Rik; Pqlc1"
                     /inference="alignment:Splign:2.1.0"
     exon            94..430
                     /gene="Slc66a2"
                     /gene_synonym="2310009N05Rik; 4933425L21Rik;
                     5730564E11Rik; Pqlc1"
                     /inference="alignment:Splign:2.1.0"
     CDS             228..989
                     /gene="Slc66a2"
                     /gene_synonym="2310009N05Rik; 4933425L21Rik;
                     5730564E11Rik; Pqlc1"
                     /note="isoform b is encoded by transcript variant 4;
                     PQ-loop repeat-containing protein 1; PQ loop repeat
                     containing 1"
                     /codon_start=1
                     /product="solute carrier family 66 member 2 isoform b"
                     /protein_id="NP_001157894.1"
                     /db_xref="CCDS:CCDS50334.1"
                     /db_xref="GeneID:66943"
                     /db_xref="MGI:MGI:1914193"
                     /translation="MEAEGLGWLLVPLHQLVSWVAAGAMVFGGVVPYIPQYRDIRRTQ
                     NADGFSTHVCLVLLVANILRILFWFGRHFESPLLWQSIVMILTMLLMLKLCTEVRVAN
                     ELNIKRRSFADFDPHHFWHWSSFSDYVQCVLAFTGVAGYITYLSIDSALFVETLGFLA
                     VLTEAMLGVPQLYRNYCHRSTEGMSLKMVLMWTSGDTFKTAYFLLNGAPLQFSVCGLL
                     QVMVDLVILGQAYAFAHHPQKPAAHAVHPASTKAL"
     exon            431..564
                     /gene="Slc66a2"
                     /gene_synonym="2310009N05Rik; 4933425L21Rik;
                     5730564E11Rik; Pqlc1"
                     /inference="alignment:Splign:2.1.0"
     exon            565..781
                     /gene="Slc66a2"
                     /gene_synonym="2310009N05Rik; 4933425L21Rik;
                     5730564E11Rik; Pqlc1"
                     /inference="alignment:Splign:2.1.0"
     exon            782..1930
                     /gene="Slc66a2"
                     /gene_synonym="2310009N05Rik; 4933425L21Rik;
                     5730564E11Rik; Pqlc1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1912..1917
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Slc66a2"
                     /gene_synonym="2310009N05Rik; 4933425L21Rik;
                     5730564E11Rik; Pqlc1"
                     /note="hexamer: AATAAA"
     polyA_site      1922
                     /gene="Slc66a2"
                     /gene_synonym="2310009N05Rik; 4933425L21Rik;
                     5730564E11Rik; Pqlc1"
                     /note="major polyA site"
ORIGIN      
        1 ggagtgggcg tgacctccat tgtgacgcca cggggcgggg cttcctctgg ctgggactga
       61 gggacagaaa gaccgactgg cgcggcgtgg ctggtcggga tggtggctga ctgcgcagga
      121 tagcggcggc catgtggagg tgacagtcag cttgcggact cagagagccc aaaggagctt
      181 ggcccaggtg gatatcgctg gttggcagcg cggcctcggt gctggcgatg gaagcggaag
      241 gcttgggatg gcttctggtc ccgctgcacc agctggtttc ctgggtggcc gctggggcca
      301 tggtcttcgg aggggtagta ccgtacatac cccaatacag ggacatccgg aggactcaga
      361 atgccgacgg tttctccacc catgtgtgcc tggtgctatt ggtggccaat attttacgga
      421 tactcttttg gttcggaagg cacttcgagt ccccgctcct gtggcagagc atagtcatga
      481 tccttacgat gttgctcatg ctgaagctct gcaccgaggt ccgcgtggcc aatgagctga
      541 acatcaagcg ccgctccttt gcagactttg atcctcacca cttctggcac tggagcagct
      601 tctcagacta tgtgcagtgt gtcctggcct tcacgggcgt ggcgggctac atcacctacc
      661 tgtccatcga ctcggctctg tttgtggaga cgctgggctt cctggctgtg ctgactgaag
      721 ccatgctggg ggtgccacag ctgtaccgaa actactgcca ccgctccacg gagggcatga
      781 gcctcaagat ggtgctcatg tggacaagtg gtgacacctt caagacggcc tacttcttgc
      841 tcaacggcgc acctctgcag ttctcagtct gcggtctact acaggtcatg gtggacctgg
      901 tcatcctggg gcaggcctat gcctttgctc accaccccca gaagccagcg gcccatgcag
      961 tgcaccctgc cagtaccaag gctctctgag gaatctaggg agaacaagga catgtgaccg
     1021 accagccgtg ggtgctgcgt cccagtctgt gcttctgcac tggggagact ggccctgtgc
     1081 actccacaga tgggccaggt gtaggcagag attaagttga gtgccgcgtc cccatcagcc
     1141 ttcaggtggg gggactcggg gtcagtggag ctagggctgg ctctgtggtg tttttgaggt
     1201 gatagaaaag gcaggcgtct ggccttacct cctccagaaa aacactggcc tgatcctgaa
     1261 atagggttgt gccactgagc aagatggcag gtacaggaag cagctgagtt ccttcctctc
     1321 agccagcttc ccacagtgag ccactgtctc ctagcagagc tggtggcact ttagggagtg
     1381 tgtagtcatg gctgcaggtg gcttgtctgt cctcaagctc tgccctgtct tgcccttgta
     1441 tgccatagct atgtctgctg cacctgtggg tgatggaagc tgctggcctg acactggtca
     1501 ctgtattttg ctcctctctg agctcatctt gagatcatgt tacacttgcc agccttgtgc
     1561 tgacctggct ggctcctggg tccagaatgt tctagatgct tctatataac agtctcttcc
     1621 cttctgctgg gcagaagaac ttcttgtgca cacgacgagg acgatgccat ccagttagca
     1681 caatagctct gacggtcatg gtggctcgcc agatggccga agagtccaca ctgtgccacc
     1741 ttttggcttc cctcggatat tctaagttgt gtgagcgaga ttcttgctta ctctttggcc
     1801 tgtaagatgc ttgtgagatg tttattttta aaaaaaaaaa aaacgaagga agatgtctgt
     1861 agtggtgatt acctccaaaa taaatgccat tgaaggcagc cctggctgct gaataaactg
     1921 aacatgcttc
//
