LOCUS       NM_001082484            5479 bp    mRNA    linear   ROD 10-DEC-2024
DEFINITION  Mus musculus sorting nexin family member 27 (Snx27), transcript
            variant 1, mRNA.
ACCESSION   NM_001082484
VERSION     NM_001082484.2
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 5479)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   2  (bases 1 to 5479)
  AUTHORS   Del Puerto,A., Pose-Utrilla,J., Simon-Garcia,A., Lopez-Menendez,C.,
            Jimenez,A.J., Porlan,E., Pajuelo,L.S.M., Cano-Garcia,G.,
            Marti-Prado,B., Sebastian-Serrano,A., Sanchez-Carralero,M.P.,
            Cesca,F., Schiavo,G., Ferrer,I., Farinas,I., Campanero,M.R. and
            Iglesias,T.
  TITLE     Kidins220 deficiency causes ventriculomegaly via
            SNX27-retromer-dependent AQP4 degradation
  JOURNAL   Mol Psychiatry 26 (11), 6411-6426 (2021)
   PUBMED   34002021
  REMARK    GeneRIF: Kidins220 deficiency causes ventriculomegaly via
            SNX27-retromer-dependent AQP4 degradation.
REFERENCE   3  (bases 1 to 5479)
  AUTHORS   Mota Vieira,M., Nguyen,T.A., Wu,K., Badger,J.D. 2nd, Collins,B.M.,
            Anggono,V., Lu,W. and Roche,K.W.
  TITLE     An Epilepsy-Associated GRIN2A Rare Variant Disrupts CaMKIIalpha
            Phosphorylation of GluN2A and NMDA Receptor Trafficking
  JOURNAL   Cell Rep 32 (9), 108104 (2020)
   PUBMED   32877683
REFERENCE   4  (bases 1 to 5479)
  AUTHORS   Parente,D.J., Morris,S.M., McKinstry,R.C., Brandt,T., Gabau,E.,
            Ruiz,A. and Shinawi,M.
  TITLE     Sorting nexin 27 (SNX27) variants associated with seizures,
            developmental delay, behavioral disturbance, and subcortical brain
            abnormalities
  JOURNAL   Clin Genet 97 (3), 437-446 (2020)
   PUBMED   31721175
  REMARK    GeneRIF: Sorting nexin 27 (SNX27) variants associated with
            seizures, developmental delay, behavioral disturbance, and
            subcortical brain abnormalities.
REFERENCE   5  (bases 1 to 5479)
  AUTHORS   DuChez,B.J., Hueschen,C.L., Zimmerman,S.P., Baumer,Y.,
            Wincovitch,S. and Playford,M.P.
  TITLE     Characterization of the interaction between beta-catenin and
            sorting nexin 27: contribution of the type I PDZ-binding motif to
            Wnt signaling
  JOURNAL   Biosci Rep 39 (11) (2019)
   PUBMED   31696214
  REMARK    GeneRIF: Characterization of the interaction between beta-catenin
            and sorting nexin 27: contribution of the type I PDZ-binding motif
            to Wnt signaling.
REFERENCE   6  (bases 1 to 5479)
  AUTHORS   Joubert,L., Hanson,B., Barthet,G., Sebben,M., Claeysen,S., Hong,W.,
            Marin,P., Dumuis,A. and Bockaert,J.
  TITLE     New sorting nexin (SNX27) and NHERF specifically interact with the
            5-HT4a receptor splice variant: roles in receptor targeting
  JOURNAL   J Cell Sci 117 (Pt 22), 5367-5379 (2004)
   PUBMED   15466885
  REMARK    GeneRIF: SNX27 and NHERF specifically interact with the 5-HT4a
            receptor splice variant
REFERENCE   7  (bases 1 to 5479)
  AUTHORS   Okazaki,N., Kikuno,R., Ohara,R., Inamoto,S., Aizawa,H., Yuasa,S.,
            Nakajima,D., Nagase,T., Ohara,O. and Koga,H.
  TITLE     Prediction of the coding sequences of mouse homologues of KIAA
            gene: II. The complete nucleotide sequences of 400 mouse
            KIAA-homologous cDNAs identified by screening of terminal sequences
            of cDNA clones randomly sampled from size-fractionated libraries
  JOURNAL   DNA Res 10 (1), 35-48 (2003)
   PUBMED   12693553
REFERENCE   8  (bases 1 to 5479)
  AUTHORS   Stryke,D., Kawamoto,M., Huang,C.C., Johns,S.J., King,L.A.,
            Harper,C.A., Meng,E.C., Lee,R.E., Yee,A., L'Italien,L.,
            Chuang,P.T., Young,S.G., Skarnes,W.C., Babbitt,P.C. and Ferrin,T.E.
  TITLE     BayGenomics: a resource of insertional mutations in mouse embryonic
            stem cells
  JOURNAL   Nucleic Acids Res 31 (1), 278-281 (2003)
   PUBMED   12520002
REFERENCE   9  (bases 1 to 5479)
  AUTHORS   Piao,Y., Ko,N.T., Lim,M.K. and Ko,M.S.
  TITLE     Construction of long-transcript enriched cDNA libraries from
            submicrogram amounts of total RNAs by a universal PCR amplification
            method
  JOURNAL   Genome Res 11 (9), 1553-1558 (2001)
   PUBMED   11544199
REFERENCE   10 (bases 1 to 5479)
  AUTHORS   Eddleston,J., Murdoch,J.N., Copp,A.J. and Stanier,P.
  TITLE     Physical and transcriptional map of a 3-Mb region of mouse
            chromosome 1 containing the gene for the neural tube defect mutant
            loop-tail (Lp)
  JOURNAL   Genomics 56 (2), 149-159 (1999)
   PUBMED   10051400
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC127252.3, AK147452.1, BC053495.1, AK043074.1 and AV490246.1.
            
            On Nov 27, 2013 this sequence version replaced NM_001082484.1.
            
            Transcript Variant: This variant (1) represents the shorter
            transcript and encodes the longer isoform (1).
            
            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.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC053495.1, SRR9219380.46140.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164134, SAMN01164135
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-14                AC127252.3         94119-94132         c
            15-188              AK147452.1         2-175
            189-1833            BC053495.1         1-1645
            1834-3698           AK043074.1         218-2082
            3699-5465           AK147452.1         4479-6245
            5466-5479           AV490246.1         219-232
FEATURES             Location/Qualifiers
     source          1..5479
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="3"
                     /map="3 40.74 cM"
     gene            1..5479
                     /gene="Snx27"
                     /gene_synonym="5730552M22Rik; ESTM45; ESTM47"
                     /note="sorting nexin family member 27"
                     /db_xref="GeneID:76742"
                     /db_xref="MGI:MGI:1923992"
     exon            1..472
                     /gene="Snx27"
                     /gene_synonym="5730552M22Rik; ESTM45; ESTM47"
                     /inference="alignment:Splign:2.1.0"
     exon            473..704
                     /gene="Snx27"
                     /gene_synonym="5730552M22Rik; ESTM45; ESTM47"
                     /inference="alignment:Splign:2.1.0"
     exon            705..897
                     /gene="Snx27"
                     /gene_synonym="5730552M22Rik; ESTM45; ESTM47"
                     /inference="alignment:Splign:2.1.0"
     exon            898..962
                     /gene="Snx27"
                     /gene_synonym="5730552M22Rik; ESTM45; ESTM47"
                     /inference="alignment:Splign:2.1.0"
     exon            963..1067
                     /gene="Snx27"
                     /gene_synonym="5730552M22Rik; ESTM45; ESTM47"
                     /inference="alignment:Splign:2.1.0"
     exon            1068..1146
                     /gene="Snx27"
                     /gene_synonym="5730552M22Rik; ESTM45; ESTM47"
                     /inference="alignment:Splign:2.1.0"
     exon            1147..1310
                     /gene="Snx27"
                     /gene_synonym="5730552M22Rik; ESTM45; ESTM47"
                     /inference="alignment:Splign:2.1.0"
     exon            1311..1400
                     /gene="Snx27"
                     /gene_synonym="5730552M22Rik; ESTM45; ESTM47"
                     /inference="alignment:Splign:2.1.0"
     exon            1401..1550
                     /gene="Snx27"
                     /gene_synonym="5730552M22Rik; ESTM45; ESTM47"
                     /inference="alignment:Splign:2.1.0"
     exon            1551..1679
                     /gene="Snx27"
                     /gene_synonym="5730552M22Rik; ESTM45; ESTM47"
                     /inference="alignment:Splign:2.1.0"
     exon            1680..1739
                     /gene="Snx27"
                     /gene_synonym="5730552M22Rik; ESTM45; ESTM47"
                     /inference="alignment:Splign:2.1.0"
     exon            1740..5469
                     /gene="Snx27"
                     /gene_synonym="5730552M22Rik; ESTM45; ESTM47"
                     /inference="alignment:Splign:2.1.0"
     regulatory      5442..5447
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Snx27"
                     /gene_synonym="5730552M22Rik; ESTM45; ESTM47"
                     /note="hexamer: AATAAA"
     polyA_site      5467
                     /gene="Snx27"
                     /gene_synonym="5730552M22Rik; ESTM45; ESTM47"
                     /note="major polyA site"
ORIGIN      
        1 tcccgccttg ctcccttttc ctcaccccct cgcagcgcgg tggcccacta gctccagcgg
       61 tcggcggagc gggcgcgcgc cggggtcgcg cggctgccgg agggggcggg cgcgcgccgg
      121 aggagtggag gcgtaggggg gcgggggacc gctcgcttgc tcgcaagatg gcggacgagg
      181 acggggaagg tattcacccc tcagccccgc accggaatgg aggcggcggc ggggggtctg
      241 ggctccactg cgccgggaac ggtggcgggg gaggcggcgg cccgcgggtc gtgcgcattg
      301 tcaagtccga atccggctac ggcttcaacg tgcggggcca agtgagcgag ggcgggcaac
      361 tgcggagcat caacggggag ctgtacgcgc cgctgcagca tgtgagcgcc gtgctgcccg
      421 ggggggcggc cgaccgggcc ggggtgcgca aaggggaccg catcctggag gtgaacggcg
      481 tgaatgttga gggggcgaca cacaagcagg tggtggacct gatccgagca ggcgagaagg
      541 aattgatctt gacagtgttg tctgtacctc ctcatgaggc tgataaccta gatcccagtg
      601 acgactcctt gggacaatca ttttatgatt acacagaaaa gcaagcagtg cccatatcgg
      661 tccccacata caaacatgtg gagcagaatg gtgagaagtt tgtggtatac aatgtttaca
      721 tggctgggag gcagctgtgt tctaagcggt accgggagtt tgccatactg caccaaaacc
      781 tgaagagaga atttgccaac tttacatttc ctcgacttcc aggaaagtgg ccattctcat
      841 tatcagaaca acaattggat gcccggcgtc gtgggttgga agaatatcta gaaaaggtgt
      901 gttcaatccg agtcattggt gagagtgaca tcatgcagga attcctgtct gagtctgatg
      961 agaattacaa tggtgtgtct gatgtagaac tgagagtagc actaccggat ggaacaacgg
     1021 ttactgtcag agttaagaag aacagtacta cagaccaagt gtaccaggct attgcagcaa
     1081 aggttggcat ggacagtaca acagtgaatt actttgcctt atttgaagtg atcaatcatt
     1141 cctttgtacg taagctggca cctaatgaat ttcctcataa actctacgtc cagaactata
     1201 catcagctgt gccaggcact tgcctgacca ttcgcaagtg gctctttaca acagaagaag
     1261 aagtcctctt aaatgacaat gaccttgctg ttacgtactt ctttcatcag gctgttgatg
     1321 atgtaaagaa aggttacatt aaagcagaag agaaatctta ccagttacag aagctccatg
     1381 aacaaaggaa gatggtcatg tacctcaaca tgctaaggac ctgcgagggc tacaatgaaa
     1441 tcatcttccc tcactgtgcc tgtgactcga ggaggaaggg acatgttatc acagccatca
     1501 gcatcacgca ctttaaactt catgcatgca ctgaagaagg gcagctggag aaccaggtaa
     1561 tagcgtttga atgggatgag atgcagcgat gggacacaga tgaagaagga atggccttct
     1621 gttttgaata tgcgcgagga gagaagaagc ctcgatgggt taaaatcttc acaccatatt
     1681 tcaattacat gcatgaatgc tttgagaggg tgttctgcga gctcaagtgg agaaaagaga
     1741 atattttcca gatggcgagg tcacagcaga gggatgtggc cacctagcct ttcctcatcc
     1801 ctttatcttc tctttgccct cagcctctta gccttttcgt ctcccatgtc agacagtaac
     1861 cattaacaca aaagaagaaa aaaaggaaaa aaaagtcact atgtcccaaa gtcctaagct
     1921 aaatattatt aataacttcc tgagaatttc ccgtctctgg aactgagctg gtagagagca
     1981 ggttgatagt accagaagtc cactgagatc agacacacaa gcccagccaa cacgccaaag
     2041 tcatctttgt cgtttgaccc gggcctcata ccaacagact ctccttgtac tatattttta
     2101 aaactggaac tatgaactcc atccatttgc actgttcaag catatatatg tatgtatgta
     2161 tgtaaaaatt atatatacac aaattagctg cacgtatata catatatata tttcttttta
     2221 aatttcatat tgatggcagt acctttttta gcttgtgttt ttacacacct ttcacagaat
     2281 tcatgacctc tctcttgctc tctttatttt gaaacaaact ttaaaaagga aaaaaaaata
     2341 cagggaaaat acctctcctc atgaaggact cgaaaagttt acaacctgct tgggttttct
     2401 tccctttttt gtattgagta cagtttctgg ctgttggttt gccatagagt ctgaggatcg
     2461 aggagtgtag tgtctttatc ttcaagaggg tgctgaggag gagaaaggcc gtttctcaag
     2521 agcagttgag gctgcaggga gtctaaagac ctagagtctc gattccaagt cattttccaa
     2581 gccatggtcc atcgatcgac gttgagtccg tcctccatct ccttcctgtt tctttagggt
     2641 cttttattat gctccctttt aactgaccca aaacagttca gggtaatctg aggaagctgt
     2701 tatagtagga aactttttct tctgcaacag gggttgtatc aggactaacc ctgacatcag
     2761 aggttggaca gatggaggaa agggaggatg gaagctgtgc ctcagattta taagggcctt
     2821 acctcttcca ttcctgtcca gtaaccatct attttacatc ctctgtgagt tctttaaaca
     2881 gctgtacgtg gaaggagtgt cttgggtaaa cttagagtct gggttgctgc caaccaaatc
     2941 agagccctgt tcatgacagc tgagggccca agaagtggga gtatggtcaa ttttagttca
     3001 ccaccaccat ttacttcaaa ggagactgaa gagaaatctc ttaaagagtt ctttacctgg
     3061 agctggggct ggtcccgagg ctgaggctgg ggccgggagt gtttgcctag cctgcataaa
     3121 gccctcaatt ccatccccag caccacataa aatttgggtg ttggggtatt gtagcacaca
     3181 cctgtaatct cagcacgtgg gaggggaatg caggaaactc agaattttca agtccacctc
     3241 tgctaactaa tgagttcaag gctatcctgg atcacatatc tcaaaagtag aagagttcct
     3301 tacctgcccc tgcacttaga cctcctagga cctaaaagca acatttggga cagaggccag
     3361 gctggcacta gagtaatagt ctcaaacctt gagtgtaaag aactctgagg ttaggtacaa
     3421 ctaaaacacg tctttgaaac tctttatcta cttttccttc gatattgaag cctccacagg
     3481 cttcgtcttt ggctttatgt agctgaaagg cagccagaat tggatgtagt tggcagtgtt
     3541 ggatttggtt taaagtttct ttcatgcctt ggttttgcag agcattcatt atgaggctac
     3601 ttttctgtct ccattattct ggcagccact tgtcgcagga aggtgtaaac acacctttta
     3661 ggatagtctt tccctcccct gtccaaaccc gtgggaccac aaagtacaaa atatagtagt
     3721 gtttaaagtt gaaaagggca atacctgatt tggaggcttt aatcaggatc aactctccct
     3781 cttggcttta ctaatgagtc tgagtacctt aagagggggc gagttgattt cctctccaag
     3841 atgctctgga ggccagctgt gttcaaactg taaaaagagc aacattgcag ctaattccct
     3901 caggaagaga gccttccaga atagggacag ggctttggaa gtcctgaaga gtcagcccca
     3961 ctgtgttggg gttaacagaa tctgtaggaa caccctgctt taggtagtct tcctaccaga
     4021 acacccagct gcagcaggga gctgggaaga agcagctccc agggtctccc agtggagctg
     4081 cagtcctgga agaggaggtc acggtggcct agaggcccac agaggcccac aggatcaagt
     4141 tcttttgcat gaagcagtgt tagatgtaac tactccctcc cccaaacccc tacccttcct
     4201 ttctctaatc ccttctatgt ttcttagacc tggcttctgc ccaggaaggc atctacaggt
     4261 tttttgggca gtttgtctct ggggaaggga cttcccctcc cagcttcact ccagcagaat
     4321 cttcctggtc tccaactgtt ctttcctcca cgaggagttt ctgttctctg atactaaaac
     4381 tcaagagatc tttacggagc aggaaactac ttagtccctg agaagccagg tgctctagga
     4441 agctttgctt gggcagtgct ttgagcttgc cgctctttgt acttttattc cggtcttcgt
     4501 ctctccgcct tccccttgcc cttgcggagg cctcagctca gcacagctac agtcagtgtt
     4561 cagggcagtt cccaggcctt gacagagctc tcagggagga acaaggtaaa tgctctagca
     4621 tcctcttgcc tggcccattt aattttatcc tttagttacc tgggccagta gctttgaatt
     4681 atcccttcat tgctccaaac ccgatgcctg aagcagcaaa atagggcact gataagaggg
     4741 agcacctctc tcatctcaga gtttccagct taagggccag ctcctagaaa gcagtcttct
     4801 taaagggacc tacatgcatt tgcgtttagc tgaagtctcc aggaatggag gtcctttctg
     4861 ccctcctttc cattctgctg gcttcagcac actgctgctc cttcaccagt tggatgggtt
     4921 gctttaactt ctttttggag gagcagcagt gtggctgaat acttagcgcc agcgggaggg
     4981 agaacgcttc tttagtcctc cgtcttggat tcttcttcct ctaaccctca gcatatctgc
     5041 cagggctcct ttccctggat agcagcagct tctttctcag cagtaactga gggtgcatgg
     5101 aaatcgggct ctggggagga gcgacaccag agggactgat cctggtagga gcacttggtt
     5161 agctgctgac catgggtgcc aacttgttat tatgccccct tgtaagctgc tgagctgggc
     5221 ttcagttttt cccaggccat gcacacttat aatttatttg agagaaacta attgtatttt
     5281 cactgcagta tcttgtactt ttatttgtga tttacaaaat gtgaagagaa agtgcagaga
     5341 cccactggct ccagtgtttc tccaaccctg ctctagagct aaccactcta agattgtttg
     5401 gtaatgttac ttagtgtaat taattgtaac atattctttt aaataaattg atttattgat
     5461 gaaacaatta aaaaaaaaa
//
