LOCUS       NM_001408225            3911 bp    mRNA    linear   ROD 13-JUN-2024
DEFINITION  Mus musculus autophagy related 9A (Atg9a), transcript variant 5,
            mRNA.
ACCESSION   NM_001408225 XM_011238688
VERSION     NM_001408225.1
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 3911)
  AUTHORS   Xu,C., Song,Y., Liu,W., Liu,R., Bai,Q., Li,L., Wang,C. and Yan,G.
  TITLE     IL-4 activates ULK1/Atg9a/Rab9 in asthma, NLRP3 inflammasomes, and
            Golgi fragmentation by increasing autophagy flux and mitochondrial
            oxidative stress
  JOURNAL   Redox Biol 71, 103090 (2024)
   PUBMED   38373380
  REMARK    GeneRIF: IL-4 activates ULK1/Atg9a/Rab9 in asthma, NLRP3
            inflammasomes, and Golgi fragmentation by increasing autophagy flux
            and mitochondrial oxidative stress.
REFERENCE   2  (bases 1 to 3911)
  AUTHORS   Zhi,X., Shi,S., Li,Y., Ma,M., Long,Y., Li,C., Hao,H., Liu,H.,
            Wang,X. and Wang,L.
  TITLE     S100a9 inhibits Atg9a transcription and participates in suppression
            of autophagy in cardiomyocytes induced by beta1-adrenoceptor
            autoantibodies
  JOURNAL   Cell Mol Biol Lett 28 (1), 74 (2023)
   PUBMED   37723445
  REMARK    GeneRIF: S100a9 inhibits Atg9a transcription and participates in
            suppression of autophagy in cardiomyocytes induced by
            beta1-adrenoceptor autoantibodies.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3911)
  AUTHORS   Zhang,J., Jiang,N., Du,C., Guo,H., Meng,R., Hou,X., Liu,M., Hu,Y.
            and Cui,X.
  TITLE     HSF4 Transcriptionally Activates Autophagy by Regulating ATG9a
            During Lens Terminal Differentiation
  JOURNAL   Invest Ophthalmol Vis Sci 64 (7), 5 (2023)
   PUBMED   37266953
  REMARK    GeneRIF: HSF4 Transcriptionally Activates Autophagy by Regulating
            ATG9a During Lens Terminal Differentiation.
REFERENCE   4  (bases 1 to 3911)
  AUTHORS   Li,H., Yu,Z., Niu,Z., Cheng,Y., Wei,Z., Cai,Y., Ma,F., Hu,L.,
            Zhu,J. and Zhang,W.
  TITLE     A neuroprotective role of Ufmylation through Atg9 in the aging
            brain of Drosophila
  JOURNAL   Cell Mol Life Sci 80 (5), 129 (2023)
   PUBMED   37086384
  REMARK    GeneRIF: A neuroprotective role of Ufmylation through Atg9 in the
            aging brain of Drosophila.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3911)
  AUTHORS   Park,D., Wu,Y., Wang,X., Gowrishankar,S., Baublis,A. and De
            Camilli,P.
  TITLE     Synaptic vesicle proteins and ATG9A self-organize in distinct
            vesicle phases within synapsin condensates
  JOURNAL   Nat Commun 14 (1), 455 (2023)
   PUBMED   36709207
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 3911)
  AUTHORS   Kageyama,S., Omori,H., Saitoh,T., Sone,T., Guan,J.L., Akira,S.,
            Imamoto,F., Noda,T. and Yoshimori,T.
  TITLE     The LC3 recruitment mechanism is separate from Atg9L1-dependent
            membrane formation in the autophagic response against Salmonella
  JOURNAL   Mol Biol Cell 22 (13), 2290-2300 (2011)
   PUBMED   21525242
REFERENCE   7  (bases 1 to 3911)
  AUTHORS   Tamura,H., Shibata,M., Koike,M., Sasaki,M. and Uchiyama,Y.
  TITLE     Atg9A protein, an autophagy-related membrane protein, is localized
            in the neurons of mouse brains
  JOURNAL   J Histochem Cytochem 58 (5), 443-453 (2010)
   PUBMED   20124090
  REMARK    GeneRIF: Atg9Ap may be involved in autophagosome formation in the
            ER and axon terminals of neurons, the TGN, and lysosomes/late
            endosomes.
REFERENCE   8  (bases 1 to 3911)
  AUTHORS   Saitoh,T., Fujita,N., Hayashi,T., Takahara,K., Satoh,T., Lee,H.,
            Matsunaga,K., Kageyama,S., Omori,H., Noda,T., Yamamoto,N.,
            Kawai,T., Ishii,K., Takeuchi,O., Yoshimori,T. and Akira,S.
  TITLE     Atg9a controls dsDNA-driven dynamic translocation of STING and the
            innate immune response
  JOURNAL   Proc Natl Acad Sci U S A 106 (49), 20842-20846 (2009)
   PUBMED   19926846
  REMARK    GeneRIF: STING co-localizes with the autophagy proteins,
            microtubule-associated protein 1 light chain 3 (LC3) and
            autophagy-related gene 9a (Atg9a), after dsDNA stimulation.
REFERENCE   9  (bases 1 to 3911)
  AUTHORS   Yamada,T., Carson,A.R., Caniggia,I., Umebayashi,K., Yoshimori,T.,
            Nakabayashi,K. and Scherer,S.W.
  TITLE     Endothelial nitric-oxide synthase antisense (NOS3AS) gene encodes
            an autophagy-related protein (APG9-like2) highly expressed in
            trophoblast
  JOURNAL   J Biol Chem 280 (18), 18283-18290 (2005)
   PUBMED   15755735
REFERENCE   10 (bases 1 to 3911)
  AUTHORS   Garcia-Frigola,C., Burgaya,F., Calbet,M., Lopez-Domenech,G., de
            Lecea,L. and Soriano,E.
  TITLE     A collection of cDNAs enriched in upper cortical layers of the
            embryonic mouse brain
  JOURNAL   Brain Res Mol Brain Res 122 (2), 133-150 (2004)
   PUBMED   15010206
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC166150.2.
            
            On Jun 14, 2022 this sequence version replaced XM_011238688.4.
            
            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 :: SRR7974084.28244.1,
                                           SRR17253012.7318544.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164131, SAMN01164135
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-243               AC166150.2         174190-174432
            244-301             AC166150.2         175039-175096
            302-433             AC166150.2         175485-175616
            434-477             AC166150.2         175764-175807
            478-542             AC166150.2         176292-176356
            543-704             AC166150.2         177813-177974
            705-846             AC166150.2         178093-178234
            847-1595            AC166150.2         178981-179729
            1596-1749           AC166150.2         179815-179968
            1750-1929           AC166150.2         180074-180253
            1930-2178           AC166150.2         180618-180866
            2179-2357           AC166150.2         181052-181230
            2358-2475           AC166150.2         181346-181463
            2476-2698           AC166150.2         182803-183025
            2699-2844           AC166150.2         183182-183327
            2845-3911           AC166150.2         183988-185054
FEATURES             Location/Qualifiers
     source          1..3911
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="1"
                     /map="1 38.62 cM"
     gene            1..3911
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /note="autophagy related 9A"
                     /db_xref="GeneID:245860"
                     /db_xref="MGI:MGI:2138446"
     exon            1..243
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /inference="alignment:Splign:2.1.0"
     exon            244..301
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /inference="alignment:Splign:2.1.0"
     exon            302..433
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /inference="alignment:Splign:2.1.0"
     CDS             331..2850
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /note="isoform a is encoded by transcript variant 5;
                     autophagy-related protein 9A; APG9 autophagy 9-like 1;
                     autophagy protein 9; APG9-like 1; autophagy-related 9-like
                     1"
                     /codon_start=1
                     /product="autophagy-related protein 9A isoform a"
                     /protein_id="NP_001395154.1"
                     /db_xref="GeneID:245860"
                     /db_xref="MGI:MGI:2138446"
                     /translation="MAQFDTEYQRLEASYSDSPPGEEDLLVHVAEGSKSPWHHIENLD
                     LFFSRVYNLHQKNGFTCMLIGEMFELMQFLFVVAFTTFLVSCVDYDILFANKMVNHSL
                     HPTEPVKVTLPDAFLPAQVCSARIQENGSLITILVIAGVFWIHRLIKFIYNICCYWEI
                     HSFYLHALRIPMSALPYCTWQEVQARIVQTQKEHQICIHKRELTELDIYHRILRFQNY
                     MVALVNKSLLPLRFRLPGLGEVVFFTRGLKYNFELILFWGPGSLFLNEWSLKAEYKRG
                     GQRLELAQRLSNRILWIGIANFLLCPLILIWQILYAFFSYAEVLKREPGALGARCWSL
                     YGRCYLRHFNELEHELQSRLNRGYKPASKYMNCFLSPLLTLLAKNGAFFAGSILAVLI
                     ALTIYDEDVLAVEHVLTTVTLLGVTVTVCRSFIPDQHMVFCPEQLLRVILAHIHYMPD
                     HWQGNAHRSQTRDEFAQLFQYKAVFILEELLSPIVTPLILIFCLRPRALEIIDFFRNF
                     TVEVVGVGDTCSFAQMDVRQHGHPQWLSGGQTEASVYQQAEDGKTELSLMHFAITNPG
                     WQPPRESTAFLGFLKEQVQRDGAAAGLAQGGLLPENALFTSIQSLQSESEPLSLIANV
                     VAGSSCRGPSLSRDLQGSRHRADVASALRSFSPLQPGAAPQGRVPSTMTGSGVDARTA
                     SSGSSVWEGQLQSLVLSEYASTEMSLHALYMHQLHKQQTQAEPERHVWHRRESDESGE
                     SAPEEGGEGARAPQPIPRSASYPCATPRPGAPETTALHGGFQRRYGGITDPGTVPRGP
                     SHFSRLPLGGWAEDGQPASRHPEPVPEEGSEDELPPQVHKV"
     exon            434..477
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /inference="alignment:Splign:2.1.0"
     exon            478..542
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /inference="alignment:Splign:2.1.0"
     exon            543..704
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /inference="alignment:Splign:2.1.0"
     exon            705..846
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /inference="alignment:Splign:2.1.0"
     exon            847..1595
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /inference="alignment:Splign:2.1.0"
     exon            1596..1749
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /inference="alignment:Splign:2.1.0"
     exon            1750..1929
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /inference="alignment:Splign:2.1.0"
     exon            1930..2178
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /inference="alignment:Splign:2.1.0"
     exon            2179..2357
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /inference="alignment:Splign:2.1.0"
     exon            2358..2475
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /inference="alignment:Splign:2.1.0"
     exon            2476..2698
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /inference="alignment:Splign:2.1.0"
     exon            2699..2844
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /inference="alignment:Splign:2.1.0"
     exon            2845..3911
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3893..3898
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /note="hexamer: AATAAA"
     polyA_site      3911
                     /gene="Atg9a"
                     /gene_synonym="Apg9l1; Atg9; Atg9l1"
                     /note="major polyA site"
ORIGIN      
        1 gagcgcgcgt gcgccggggc cgcgcgccgg gttgtccgct gttgggagcc tagcccccgg
       61 cctggggccg ggcgaccctg gggcgccctg tgctcaggtc taggtggctg ggattgggga
      121 ggcatcccag cccaccaggg atttcagctg tagatctggc tcgacccctc caccatccac
      181 agacacccct gggcacaggc ccttcctggg gagatccatg ggccctgggt ctacactgac
      241 cagcagctgt ccaaccaggg cacccaggac tgacgtgtag cagaaactgt ccatggagct
      301 ggttaacaag gtggacaggg ggctgtggtg atggcacagt ttgacactga ataccagcgc
      361 ctagaggcct cctatagcga ttcgcccccc ggggaagagg acctgttggt gcatgtggcc
      421 gaggggagca aatcaccttg gcaccacatt gaaaaccttg acctcttctt ctctcgagtt
      481 tataatctcc accagaagaa tggcttcaca tgtatgctca ttggagagat gtttgaactc
      541 atgcagttcc tctttgtggt tgccttcacc accttcctgg ttagctgtgt ggactatgac
      601 atcctctttg ccaacaagat ggtgaaccac agtctccatc ctactgagcc tgtcaaggtc
      661 actctgccag atgccttttt gcctgcccaa gtctgtagtg ccaggattca ggaaaatggc
      721 tctcttatca ccatcctggt cattgctggt gtcttctgga tccaccggct tatcaagttt
      781 atctataaca tttgctgcta ttgggagatc cactccttct acctacatgc tcttcggatc
      841 ccaatgtctg cccttccata ctgcacatgg caggaagttc aggcccggat tgtgcagacg
      901 cagaaagagc atcagatctg catccacaag cgtgagctga cagagttgga catctaccat
      961 cgcatcctac gtttccagaa ctacatggtg gccctggtga acaaatccct cctgcctctg
     1021 cgcttccgtc tgcccggcct cggagaggtt gtcttcttca cccgtggcct caagtacaac
     1081 tttgagctca tcctcttctg gggacccggc tctctgtttc tcaatgagtg gagcctcaag
     1141 gccgagtaca aacgtggagg gcaacggcta gagctggccc agcgtctcag caaccgcatc
     1201 ttgtggattg gcatcgccaa cttcctgctg tgtcccctca tcctcatctg gcagatcctc
     1261 tatgccttct tcagctatgc cgaggtgctg aagagagagc cgggggccct gggagcgcgt
     1321 tgctggtcac tctatggccg ttgttacctc cgccacttca atgagctgga gcatgagctg
     1381 cagtcccgcc tcaaccgagg ctacaagccc gcctccaagt acatgaattg cttcttgtca
     1441 ccgctgctga ctctgctggc caagaatggt gccttcttcg ctggctctat cctggctgtg
     1501 cttattgccc tcaccatcta tgatgaagat gtgttagctg tggaacacgt cctcaccacg
     1561 gtcaccctcc tgggagtcac ggtgactgtg tgcaggtcct tcatcccaga ccagcacatg
     1621 gtgttctgcc ccgagcagct gctccgagtg attcttgcac acatccacta catgcctgac
     1681 cactggcagg gtaatgccca ccgctcgcag acccgggacg agtttgccca gctcttccag
     1741 tacaaggcag tgttcatctt ggaggagttg ctgagtccca tcgtcacacc cctcattctc
     1801 atcttctgcc tccgccctcg ggccctggag atcatagact tcttccgcaa ctttacggtc
     1861 gaggtcgtgg gtgtgggaga cacctgctcc tttgctcaga tggacgttcg ccagcatggc
     1921 catcctcagt ggctgtctgg agggcagaca gaggcctcag tgtaccagca agccgaggac
     1981 gggaagaccg agttgtcgct catgcacttt gccatcacca atcccggctg gcagccccct
     2041 cgtgagagca cagctttcct gggcttcctc aaggagcagg tgcagcgaga tggagcagct
     2101 gctggcctgg cccagggtgg cctgctcccc gagaatgccc tcttcacatc catccagtcc
     2161 ttacagtctg agtccgagcc actgagcctt attgcaaatg tggtagcagg ctcatcctgc
     2221 cgaggaccct cactgtccag agacctgcag ggctccaggc acagggctga tgttgcttct
     2281 gcccttcgat ccttctcccc tctgcagcct ggagcggccc ctcaaggccg ggttcccagt
     2341 accatgacag gctctggagt ggatgccagg acagccagct ctgggagtag cgtgtgggaa
     2401 ggacagctgc agagcctggt gctgtccgaa tacgcgtcca ccgagatgag cctgcacgcc
     2461 ctgtacatgc accagctcca caagcagcag acccaggctg agcccgagcg gcatgtgtgg
     2521 caccgccggg agagtgatga gagtggagag agtgcccctg aagagggggg agagggtgcc
     2581 cgggcccccc aacccatccc ccgctcggcc agctatccct gtgctacacc ccggcctgga
     2641 gcacctgaga ccaccgccct gcatgggggc ttccagaggc gctacggggg catcacagat
     2701 cctggcacag tgccccgtgg cccctctcac ttctccaggc tgcccctggg aggatgggca
     2761 gaagatggcc agccagcatc aaggcaccca gagccggtgc cagaggaggg ctcagaggat
     2821 gaactccccc ctcaagtgca caaggtatag gcaaggcggt agctggttcc catgctccag
     2881 gatggaggtg gcagctgccc tgccatccct tctgtctgcc atgagaggga ctctctgagt
     2941 gtcgcctggc cccacgtgtg gtgttttgtg tgttcctgcc tggccaaggg aggtgccaat
     3001 gctgggctta ccatagtcca ggaagaatat gaggactagg ggcacacaag agtctagctt
     3061 cgtctccagg actcccttgg ctcagagtgt ggtgctagaa actggtcccc agcccagtcc
     3121 cagtactgcc atctttgcat ccacccctgc aagtctccag agggcttcct gccacagaag
     3181 tgctgccaag cagaagaacc tgtgccaact gtggagtggg gaggcagggc ctgaaccctc
     3241 aatccctgca gcctagcctc cccaccctcc agaacctgga atagctgagc agctcaggct
     3301 gtggccctta cctccagtcc tcacctcaac ctgcgctgca gcctccctcc cccctgcaca
     3361 tcactggcat gtgtgctgct tgaccacccc cccttctgtt cacctgcccc ccttctgttt
     3421 ggctttggct ttttgttggg gtgagagccc tagctcccag ctcccctcac tatcttttga
     3481 cactaagatg gaaggttact aagttgcagg aacaggatga aaattcttta ttaccctctt
     3541 caacttttag gacgagcact tgggagtgtg aggccttcct ggctgcttct atgtagtcct
     3601 accacctgca cagaggggct ggcagggcag aagtgtgacc tcagttatat atacatccca
     3661 gctctgccca gtatccctca cttaccaaga ggagaatgga gggataatgg actcacccta
     3721 gcctagggct tcgacattgc atgctgggat ccagctccta cccttcctgc actcccttcc
     3781 ccagttctgc tcagctcagc tgtgggaggt aaacttaagc tgaaggtggc ggactctact
     3841 gtcgcaggcc acagcagaca gggtgggagc cctgtacagc ttgataaccc ttaataaaga
     3901 agggactttg a
//
