LOCUS       NM_001419592            4500 bp    mRNA    linear   ROD 26-APR-2024
DEFINITION  Rattus norvegicus solute carrier family 9 member A6 (Slc9a6), mRNA.
ACCESSION   NM_001419592 XM_039100497
VERSION     NM_001419592.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 4500)
  AUTHORS   Figueroa,K.P., Anderson,C.J., Paul,S., Dansithong,W., Gandelman,M.,
            Scoles,D.R. and Pulst,S.M.
  TITLE     Slc9a6 mutation causes Purkinje cell loss and ataxia in the shaker
            rat
  JOURNAL   Hum Mol Genet 32 (10), 1647-1659 (2023)
   PUBMED   36621975
  REMARK    GeneRIF: Slc9a6 mutation causes Purkinje cell loss and ataxia in
            the shaker rat.
REFERENCE   2  (bases 1 to 4500)
  AUTHORS   Lee,Y., Miller,M.R., Fernandez,M.A., Berg,E.L., Prada,A.M.,
            Ouyang,Q., Schmidt,M., Silverman,J.L., Young-Pearse,T.L. and
            Morrow,E.M.
  TITLE     Early lysosome defects precede neurodegeneration with amyloid-beta
            and tau aggregation in NHE6-null rat brain
  JOURNAL   Brain 145 (9), 3187-3202 (2022)
   PUBMED   34928329
REFERENCE   3  (bases 1 to 4500)
  AUTHORS   Lee,U., Ryu,S.H. and Chang,S.
  TITLE     SCAMP5 mediates activity-dependent enhancement of NHE6 recruitment
            to synaptic vesicles during synaptic plasticity
  JOURNAL   Mol Brain 14 (1), 47 (2021)
   PUBMED   33663553
  REMARK    GeneRIF: SCAMP5 mediates activity-dependent enhancement of NHE6
            recruitment to synaptic vesicles during synaptic plasticity.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 4500)
  AUTHORS   Lee,U., Choi,C., Ryu,S.H., Park,D., Lee,S.E., Kim,K., Kim,Y. and
            Chang,S.
  TITLE     SCAMP5 plays a critical role in axonal trafficking and synaptic
            localization of NHE6 to adjust quantal size at glutamatergic
            synapses
  JOURNAL   Proc Natl Acad Sci U S A 118 (2) (2021)
   PUBMED   33372133
REFERENCE   5  (bases 1 to 4500)
  AUTHORS   Ouyang,Q., Lizarraga,S.B., Schmidt,M., Yang,U., Gong,J.,
            Ellisor,D., Kauer,J.A. and Morrow,E.M.
  TITLE     Christianson syndrome protein NHE6 modulates TrkB endosomal
            signaling required for neuronal circuit development
  JOURNAL   Neuron 80 (1), 97-112 (2013)
   PUBMED   24035762
REFERENCE   6  (bases 1 to 4500)
  AUTHORS   Deane,E.C., Ilie,A.E., Sizdahkhani,S., Das Gupta,M., Orlowski,J.
            and McKinney,R.A.
  TITLE     Enhanced recruitment of endosomal Na+/H+ exchanger NHE6 into
            Dendritic spines of hippocampal pyramidal neurons during NMDA
            receptor-dependent long-term potentiation
  JOURNAL   J Neurosci 33 (2), 595-610 (2013)
   PUBMED   23303939
REFERENCE   7  (bases 1 to 4500)
  AUTHORS   Rodrigues-Ferreira,S. and Nahmias,C.
  TITLE     An ATIPical family of angiotensin II AT2 receptor-interacting
            proteins
  JOURNAL   Trends Endocrinol Metab 21 (11), 684-690 (2010)
   PUBMED   20889352
  REMARK    Review article
REFERENCE   8  (bases 1 to 4500)
  AUTHORS   Mootha,V.K., Bunkenborg,J., Olsen,J.V., Hjerrild,M.,
            Wisniewski,J.R., Stahl,E., Bolouri,M.S., Ray,H.N., Sihag,S.,
            Kamal,M., Patterson,N., Lander,E.S. and Mann,M.
  TITLE     Integrated analysis of protein composition, tissue diversity, and
            gene regulation in mouse mitochondria
  JOURNAL   Cell 115 (5), 629-640 (2003)
   PUBMED   14651853
REFERENCE   9  (bases 1 to 4500)
  AUTHORS   Brett,C.L., Wei,Y., Donowitz,M. and Rao,R.
  TITLE     Human Na(+)/H(+) exchanger isoform 6 is found in recycling
            endosomes of cells, not in mitochondria
  JOURNAL   Am J Physiol Cell Physiol 282 (5), C1031-C1041 (2002)
   PUBMED   11940519
REFERENCE   10 (bases 1 to 4500)
  AUTHORS   Miyazaki,E., Sakaguchi,M., Wakabayashi,S., Shigekawa,M. and
            Mihara,K.
  TITLE     NHE6 protein possesses a signal peptide destined for endoplasmic
            reticulum membrane and localizes in secretory organelles of the
            cell
  JOURNAL   J Biol Chem 276 (52), 49221-49227 (2001)
   PUBMED   11641397
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000021.1.
            
            On Apr 12, 2023 this sequence version replaced XM_039100497.1.
            
            ##Evidence-Data-START##
            RNAseq introns :: partial sample support SAMEA5760386, SAMEA5760389
                              [ECO:0000350]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            inferred exon combination :: based on alignments, homology
            RefSeq Select criteria    :: based on manual assertion,
                                         conservation
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-32                JAXUCZ010000021.1  139468045-139468076
            33-257              JAXUCZ010000021.1  139468221-139468445
            258-457             JAXUCZ010000021.1  139478136-139478335
            458-535             JAXUCZ010000021.1  139480435-139480512
            536-612             JAXUCZ010000021.1  139480790-139480866
            613-725             JAXUCZ010000021.1  139481165-139481277
            726-831             JAXUCZ010000021.1  139486261-139486366
            832-973             JAXUCZ010000021.1  139491495-139491636
            974-1079            JAXUCZ010000021.1  139493928-139494033
            1080-1168           JAXUCZ010000021.1  139494326-139494414
            1169-1282           JAXUCZ010000021.1  139497002-139497115
            1283-1394           JAXUCZ010000021.1  139503152-139503263
            1395-1548           JAXUCZ010000021.1  139504674-139504827
            1549-1638           JAXUCZ010000021.1  139509111-139509200
            1639-1669           JAXUCZ010000021.1  139510240-139510270
            1670-1749           JAXUCZ010000021.1  139514919-139514998
            1750-1855           JAXUCZ010000021.1  139518336-139518441
            1856-4500           JAXUCZ010000021.1  139521467-139524111
FEATURES             Location/Qualifiers
     source          1..4500
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="X"
                     /map="Xq36"
     gene            1..4500
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /note="solute carrier family 9 member A6"
                     /db_xref="GeneID:302863"
                     /db_xref="RGD:1563582"
     exon            1..32
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
     exon            33..257
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
     CDS             89..2128
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /note="solute carrier family 9 (sodium/hydrogen
                     exchanger), member 6; solute carrier family 9, subfamily A
                     (NHE6, cation proton antiporter 6), member 6; Na(+)/H(+)
                     exchanger 6; solute carrier family 9 member 6"
                     /codon_start=1
                     /product="sodium/hydrogen exchanger 6"
                     /protein_id="NP_001406521.1"
                     /db_xref="GeneID:302863"
                     /db_xref="RGD:1563582"
                     /translation="MDEEIVSEKQAEESHRQDSANLLIFILLLTLTILTIWLFKHRRA
                     RFLHETGLAMIYGLLVGLVLRYGIHVPSDVNNVTLSCEVQSSPTTLLVNVSGKFYEYT
                     LKGEISSHELNNVQDNEMLRKVTFDPEVFFNILLPPIIFYAGYSLKRRHFFRNLGSIL
                     AYAFLGTAISCFVIGSIMYGCVTLMKVTGQLAGDFYFTDCLLFGAIVSATDPVTVLAI
                     FHELQVDVELYALLFGESVLNDAVAIVLSSSIVAYQPAGDNSHTFDVTAMFKSIGIFL
                     GIFSGSFAMGAATGVVTALVTKFTKLREFQLLETGLFFLMSWSTFLLAEAWGFTGVVA
                     VLFCGITQAHYTYNNLSTESQHRTKQLFELLNFLAENFIFSYMGLTLFTFQNHVFNPT
                     FVVGAFIAIFLGRAANIYPLSLLLNLGRRSKIGSNFQHMMMFAGLRGAMAFALAIRDT
                     ATYARQMMFSTTLLIVFFTVWVFGGGTTAMLSCLHIRYYARLWGYRDELRHGLYPQGA
                     HSLFGETDRVGVDSDQEHLGVPDNERRTTKAESAWLFRMWYNFDHNYLKPLLTHSGPP
                     LTTTLPACCGPIARCLTSPQAYENQEQLKDDDSDLILNDGDISLTYGDSTVNTESATA
                     SAPRRFMGTSTEDALDRELTFGDHELVIRGTRLVLPMDDSEPALNSLDDTRHSPA"
     exon            258..457
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
     exon            458..535
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
     exon            536..612
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
     exon            613..725
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
     exon            726..831
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
     exon            832..973
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
     exon            974..1079
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
     exon            1080..1168
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
     exon            1169..1282
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
     exon            1283..1394
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
     exon            1395..1548
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
     exon            1549..1638
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
     exon            1639..1669
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
     exon            1670..1749
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
     exon            1750..1855
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
     exon            1856..4500
                     /gene="Slc9a6"
                     /gene_synonym="NHE-6; RGD1563582"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 acggggagtg gtccgaccac gggcggctgc ggtgagcttc tttggctggg ccggggctct
       61 ggacagctct gggggaacga ccagagccat ggacgaggag atcgtgtccg agaagcaggc
      121 ggaggagagc catcggcagg acagcgccaa cctgctcatc ttcatcctgc tgctcaccct
      181 caccattctg acgatctggc ttttcaagca ccgccgggcc cgcttcctgc acgaaaccgg
      241 ccttgctatg atttatggtc ttttggttgg ccttgtgctt cggtatggca tccatgtccc
      301 gagcgatgtg aacaatgtga ccttgagctg tgaagtgcag tcaagtccga ctaccttgct
      361 ggtgaacgtc agtgggaagt tttatgagta tacgctgaaa ggagagatta gttcccacga
      421 actcaacaat gttcaggata acgagatgct caggaaggtt acttttgatc cagaagtctt
      481 tttcaacata ctgcttcctc ctatcatatt ttatgcaggc tacagtctca aaaggagaca
      541 tttcttccgg aaccttgggt ctatcttagc atatgccttt ctcggaacag caatctcttg
      601 tttcgttatt gggtccataa tgtacggctg tgtaaccctg atgaaggtga ctgggcaact
      661 cgcgggagat ttctacttta cagactgctt gctgttcggt gccattgtat cagccacaga
      721 cccagtgact gttcttgcca tcttccatga acttcaagtt gatgttgaac tctacgctct
      781 tctcttcggg gaaagtgtcc tcaatgatgc agttgccata gtgctgtcct cctcaatagt
      841 ggcgtaccag ccagctggag acaacagcca cacctttgat gttacagcca tgttcaaatc
      901 tattggaatt ttccttggga tcttcagtgg atcttttgca atgggtgctg caacaggagt
      961 ggtgacagct ttagtgacaa agttcacaaa gctgcgggag ttccagctgt tggagacagg
     1021 tctgttcttc ttgatgtcct ggagcacctt ccttttggcc gaagcatggg gttttacagg
     1081 tgtggttgca gtattgttct gtggcatcac acaagcacat tacacgtaca ataatttgtc
     1141 tacggaatct cagcatagaa cgaagcagtt gtttgagctt ctcaattttt tagcggagaa
     1201 cttcatcttt tcctacatgg ggctgacgct gttcaccttc cagaatcatg tctttaaccc
     1261 aacatttgtt gtaggcgcat tcatcgctat tttcttggga agagctgcca atatttaccc
     1321 cttgtctctc ttacttaatt tgggtagaag aagtaagatt ggatcaaatt ttcaacatat
     1381 gatgatgttt gctggtctcc gtggtgcaat ggcatttgcc ttggccattc gagataccgc
     1441 cacttacgcc cggcaaatga tgttcagcac tacactcctg atcgtgttct ttactgtgtg
     1501 ggtgtttggt ggaggtacca ctgccatgct gtcgtgcctg cacataaggt actatgctag
     1561 actctgggga tacagagatg aattgagaca tggcctttac cctcaaggag ctcacagtct
     1621 ttttggggag acggacaggg ttggtgttga ttcagaccaa gaacatttgg gtgttcctga
     1681 caacgaaagg agaaccacca aagcagagag tgcctggctc tttcggatgt ggtacaactt
     1741 cgatcataac tacctgaagc ccctgctgac ccacagtggg cctcctctga ccaccacgct
     1801 cccagcctgc tgcgggccaa ttgccaggtg cctgaccagc ccccaggcgt acgaaaacca
     1861 ggagcagttg aaagatgatg actccgatct cattctcaat gatggtgata tcagtttgac
     1921 gtatggggat tctactgtga acacagagtc cgcaacagcc agcgccccaa ggagatttat
     1981 gggcaccagt actgaagatg ccttggatcg ggagcttaca tttggggacc acgaactggt
     2041 cattcgtggg acacgcctgg ttcttccgat ggatgattct gaacctgcat taaattcatt
     2101 agatgacaca agacacagtc cagcctaagc gttctgatac tcagttagtg gtttgtaaac
     2161 tttgcacatg tgattgtgaa gaaatgtgta ctacctacaa gtcctagtgc atgtctctga
     2221 atgtgtaagc tatataaatg ccgtttatat ggcataggaa gaatataaat accctgtaca
     2281 aggcagattg tgaaaaaact gttctcttaa gttttgctgg ctgtattaca ttggccagat
     2341 gtgttttaga aactttcttt cacagtgatg ttgtgttttc tgttagtttt atgtttcagt
     2401 taaagtataa aaagtgacgg attgcccctt tcttatattt atctgagtac caagttcttg
     2461 tgatgtgagt taatttgtgt gtggcaggga aggggaggga agggggagct gttgttccct
     2521 cgggaaccca gggaggagag gttcctttgt tggaaaaact tttgttgatt gctgctgcct
     2581 ttgtcgtgac tttttctttc ccttttctct ggtggccctt tgtggtgcaa ggagctgatg
     2641 gcattttgat ctcaccccat tcaggttggg gactgaagtg ggggggccgt ttttccccca
     2701 ttgatgtgaa agaacagatt tcttgactac agtacattga tgctctgaga aagtaggcta
     2761 caaatgacct ccaagacctt atttctttcc tttcacacca agaccatagg aattgcatcc
     2821 agctggctca gccaaagaac aggtgtatat cattcagggc acttgttaca gatttggggg
     2881 cgctggagca agtggacatg gggcatagga tgggggtgtt ggaggtcttt cttcccaaat
     2941 atgtaaatat ctataccaga taagtgaaat aggaaaagta actgctgctt cattttggat
     3001 tatgttcttt gtgtggacag ccagccttga catcccaagt tttttatatc aacgcaaatc
     3061 gctgctcttt agcagccaaa caggagcaaa atgtaaaatt tttaaactca ttatgtttag
     3121 tggtcacttg tgagttgcta gttgatgtta aaagttaatt tatgaaccca caattgttct
     3181 gtactacacc agaggcagcc cgaaggggaa tgcagtgctc tgcagtgtct ttgaaggggt
     3241 tctcttggtg tggagtgggt gtgcttgtct ccattgtcct gttacctaag ccgccgtgtg
     3301 tcattttctg atggtttttt gaggaagagc acagaacaaa ttttcatttc atattcatag
     3361 tatgaaagtg gtttctactg tgtaatgctg caaataccca aaggtacatt gaacacctgg
     3421 aaggggatac tttttgatgc tgattctgac ctgttcctga ttcaggagaa aaaagtacaa
     3481 atgtgtattt ttctccctca ggtcccagta gcattgcctt aaatctaacc cgattagaaa
     3541 cttgattact tatgtgatgt tcaaattttc cactgggaag aaaccttcca aactaaagat
     3601 gcacttactc tcaaaagggt tctgtgccat tgccaacact ccttgaaatt ttaaaggaat
     3661 tctcatggtg tacccttcgt ggcagccttg acttttggca tagccatttg ttatgtagtg
     3721 gtagtgactt tcctgctatg caggaactcc gcctgtgaag tgtacgtttt atatgatgcg
     3781 tggctcttca tgcagtaaat aatttcttgt taatgtatgt ttgaggggtt ttgaatgtca
     3841 gcatcattga cccacaaaat cattcaagtt gtaaaagggt atccagtgat ttaactacta
     3901 tcttttttca ttctgtcagg ttactgagct cacattatga aaatggctat aaatacttag
     3961 catgacaaat tctgtaacct gtctcttttt agcatgcata agattgctca ttaaggaaac
     4021 tgataacgct tgagtccact aaatctgcct tcagtacttt atcaaaggag aacgaagctg
     4081 gttgtactta tgtattcatc tggaagactt tttcccctct cttgtctgtg tacaacatcc
     4141 ccatgcaaag agaaaagcac ctctgttgag acagtcatta ggattaagcg cctcgatgag
     4201 ctttgatgaa gtacagtgag ttacaatcgt gcatgagtga actgctcgtg gacctgtgtt
     4261 tctgttgttc gtggaaccta catgtttgat tgacttgaac attgcatctc tcagagttgt
     4321 ttttttaaga tctcctggca tttatcctag tctgtgtttg gcagcgtgct gttaaagtac
     4381 tagacttcta atctttgtgt gctttttctt ttcccttgga gtacttggaa agatgttata
     4441 gtggtttctt ttaggaaaat ctgtcattaa aaaaattata gccttgcaaa taaccattca
//
