LOCUS       NM_001108809            2949 bp    mRNA    linear   ROD 17-SEP-2024
DEFINITION  Rattus norvegicus autophagy related 16-like 1 (Atg16l1), mRNA.
ACCESSION   NM_001108809 XM_001067061 XM_001067113 XM_343619
VERSION     NM_001108809.3
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 2949)
  AUTHORS   Dong,L., Sun,Q., Qiu,H., Yang,K., Xiao,B., Xia,T., Wang,A., Gao,H.
            and Zhang,S.
  TITLE     Melatonin protects against developmental PBDE-47 neurotoxicity by
            targeting the AMPK/mitophagy axis
  JOURNAL   J Pineal Res 75 (1), e12871 (2023)
   PUBMED   37042059
REFERENCE   2  (bases 1 to 2949)
  AUTHORS   Yu,S., Tang,X., Zheng,T., Li,S., Ren,H., Wu,H., Peng,F. and Gong,L.
  TITLE     Plasma-derived extracellular vesicles transfer microRNA-130a-3p to
            alleviate myocardial ischemia/reperfusion injury by targeting
            ATG16L1
  JOURNAL   Cell Tissue Res 389 (1), 99-114 (2022)
   PUBMED   35503135
  REMARK    GeneRIF: Plasma-derived extracellular vesicles transfer
            microRNA-130a-3p to alleviate myocardial ischemia/reperfusion
            injury by targeting ATG16L1.
REFERENCE   3  (bases 1 to 2949)
  AUTHORS   Shi,G., Zhang,Z., Ma,S., Li,Y., Du,S., Chu,Y., Li,Y., Tang,X.,
            Yang,Y., Chen,Z., Wang,Z. and Wu,H.
  TITLE     Hepatic interferon regulatory factor 8 expression mediates liver
            ischemia/reperfusion injury in mice
  JOURNAL   Biochem Pharmacol 192, 114728 (2021)
   PUBMED   34400126
REFERENCE   4  (bases 1 to 2949)
  AUTHORS   Chesney,K.L., Men,H., Hankins,M.A. and Bryda,E.C.
  TITLE     The Atg16l1 gene: characterization of wild type, knock-in, and
            knock-out phenotypes in rats
  JOURNAL   Physiol Genomics 53 (6), 269-281 (2021)
   PUBMED   33818130
  REMARK    GeneRIF: The Atg16l1 gene: characterization of wild type, knock-in,
            and knock-out phenotypes in rats.
REFERENCE   5  (bases 1 to 2949)
  AUTHORS   Men,H., Hankins,M.A., Bock,A.S., Beaton,B.P., Davis,D.J.,
            Chesney,K.L. and Bryda,E.C.
  TITLE     Mutational analyses of novel rat models with targeted modifications
            in inflammatory bowel disease susceptibility genes
  JOURNAL   Mamm Genome 32 (3), 173-182 (2021)
   PUBMED   33843019
  REMARK    GeneRIF: Mutational analyses of novel rat models with targeted
            modifications in inflammatory bowel disease susceptibility genes.
REFERENCE   6  (bases 1 to 2949)
  AUTHORS   Itakura,E. and Mizushima,N.
  TITLE     p62 Targeting to the autophagosome formation site requires
            self-oligomerization but not LC3 binding
  JOURNAL   J Cell Biol 192 (1), 17-27 (2011)
   PUBMED   21220506
REFERENCE   7  (bases 1 to 2949)
  AUTHORS   Behrends,C., Sowa,M.E., Gygi,S.P. and Harper,J.W.
  TITLE     Network organization of the human autophagy system
  JOURNAL   Nature 466 (7302), 68-76 (2010)
   PUBMED   20562859
REFERENCE   8  (bases 1 to 2949)
  AUTHORS   Yang,Z. and Klionsky,D.J.
  TITLE     Mammalian autophagy: core molecular machinery and signaling
            regulation
  JOURNAL   Curr Opin Cell Biol 22 (2), 124-131 (2010)
   PUBMED   20034776
  REMARK    Review article
REFERENCE   9  (bases 1 to 2949)
  AUTHORS   Tanida,I., Ueno,T. and Kominami,E.
  TITLE     LC3 conjugation system in mammalian autophagy
  JOURNAL   Int J Biochem Cell Biol 36 (12), 2503-2518 (2004)
   PUBMED   15325588
  REMARK    Review article
REFERENCE   10 (bases 1 to 2949)
  AUTHORS   Mizushima,N., Kuma,A., Kobayashi,Y., Yamamoto,A., Matsubae,M.,
            Takao,T., Natsume,T., Ohsumi,Y. and Yoshimori,T.
  TITLE     Mouse Apg16L, a novel WD-repeat protein, targets to the autophagic
            isolation membrane with the Apg12-Apg5 conjugate
  JOURNAL   J Cell Sci 116 (Pt 9), 1679-1688 (2003)
   PUBMED   12665549
  REMARK    GeneRIF: Functional characterization of the mouse Atg16l1 (Apg16L)
            ortholog.
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from
            JAXUCZ010000009.1.
            
            On Nov 27, 2008 this sequence version replaced NM_001108809.2.
            
            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.
            
            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 :: SRR26360190.1114944.1,
                                           SRR26360176.1901403.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760383, SAMEA5760386
                                           [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
            1-116               JAXUCZ010000009.1  95870013-95870128
            117-210             JAXUCZ010000009.1  95874040-95874133
            211-316             JAXUCZ010000009.1  95878897-95879002
            317-390             JAXUCZ010000009.1  95879644-95879717
            391-642             JAXUCZ010000009.1  95880492-95880743
            643-708             JAXUCZ010000009.1  95884824-95884889
            709-795             JAXUCZ010000009.1  95887076-95887162
            796-852             JAXUCZ010000009.1  95887750-95887806
            853-955             JAXUCZ010000009.1  95888688-95888790
            956-1061            JAXUCZ010000009.1  95891832-95891937
            1062-1132           JAXUCZ010000009.1  95893048-95893118
            1133-1204           JAXUCZ010000009.1  95894582-95894653
            1205-1325           JAXUCZ010000009.1  95899802-95899922
            1326-1431           JAXUCZ010000009.1  95900164-95900269
            1432-1581           JAXUCZ010000009.1  95902175-95902324
            1582-1629           JAXUCZ010000009.1  95902418-95902465
            1630-1731           JAXUCZ010000009.1  95903427-95903528
            1732-2949           JAXUCZ010000009.1  95904137-95905354
FEATURES             Location/Qualifiers
     source          1..2949
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="9"
                     /map="9q35"
     gene            1..2949
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /note="autophagy related 16-like 1"
                     /db_xref="GeneID:363278"
                     /db_xref="RGD:1310631"
     exon            1..116
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
     CDS             2..1825
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /note="WD repeat domain 30; APG16 autophagy 16-like"
                     /codon_start=1
                     /product="autophagy-related protein 16-1"
                     /protein_id="NP_001102279.2"
                     /db_xref="GeneID:363278"
                     /db_xref="RGD:1310631"
                     /translation="MSSGLRAADFPRWKRHIAEELRRRDRLQRQAFEEIILQYTKLLE
                     KSDLHSVLTQKLQAEKHDVPNRHEISPGHDGAWNDSQLQEMAQLKMKHQEELTELHKK
                     RGELAQLVIDLNNQMQQKDKEIQTNEAKIAECLQTISDLEADCLDLRTKLQDLEVANQ
                     TLKDEYDALQITFTALEEKLRKTTEENQELVTRWMAEKAQEANRLNAENEKDSRRRQA
                     RLQKELAEAAKEPLPVEQDDDIEVIVDETSDHTEETSPVRAISRAATKRLSQPAGGLL
                     DSITNIFGRRSVSSIPVPQDVVDTHPASGKDVRVPTTASYVFDAHDGEVNAVQFSPGS
                     RLLATGGMDRRVKLWEAFGDKCEFKGSLSGSNAGITSIEFDSAGAYLLAASNDFASRI
                     WTVDDYRLRHTLTGHSGKVLSAKFLLDNARIVSGSHDRTLKLWDLRSKVCIKTVFAGS
                     SCNDIVCTEQCVMSGHFDKKIRFWDIRSESVVREMELLGKITALDLNPERTELLSCSR
                     DDLLKIIDLRTNAIKQSFSAPGFKCGSDWTRVVFSPDGSYVAAGSADGSLYVWSVLTG
                     KVEKVLSKQHSSSINAVAWAPSGLHVVSVDKGSRAVLWAQP"
     exon            117..210
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
     exon            211..316
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
     exon            317..390
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
     exon            391..642
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
     exon            643..708
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
     exon            709..795
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
     exon            796..852
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
     exon            853..955
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
     exon            956..1061
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
     exon            1062..1132
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
     exon            1133..1204
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
     exon            1205..1325
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
     exon            1326..1431
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
     exon            1432..1581
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
     exon            1582..1629
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
     exon            1630..1731
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
     exon            1732..2949
                     /gene="Atg16l1"
                     /gene_synonym="Apg16l; Wdr30"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 catgtcgtcg ggcctccgcg ccgcagactt tccccgctgg aagcgccaca tcgcggagga
       61 actgaggcgc cgggaccggc tgcagaggca ggcgttcgag gagatcattc tgcagtatac
      121 caagttgctg gagaagtcag atcttcattc agtattgacc cagaaactac aggctgaaaa
      181 gcacgacgta ccaaataggc atgaaataag tcctgggcac gatggtgcat ggaatgacag
      241 tcagctacaa gaaatggccc agttgaagat gaaacaccag gaagagctga ctgaactgca
      301 caagaagcgt ggggagttag ctcagttggt gattgacctg aataaccaga tgcagcagaa
      361 ggacaaggag atacagacga atgaagcaaa gattgcagag tgtttacaga ccatctctga
      421 cctggaggca gactgcctgg acctgcgcac caaactgcag gaccttgagg tagccaacca
      481 gaccctgaag gatgagtatg atgccctgca gattactttt actgccctag aagagaaact
      541 gaggaaaact actgaggaga accaggaact ggtcaccagg tggatggctg agaaggccca
      601 agaagccaat cgccttaatg cggagaatga gaaggactcc aggaggcgac aagcacggtt
      661 gcagaaggag cttgcagaag cagcaaagga acctctacct gtcgaacagg atgatgacat
      721 tgaagtcatt gtagatgaga cctcagatca cacagaagag acctctcctg tgcgagccat
      781 cagcagagca gctactaagc gactctcgca gcctgctgga ggccttctgg attctatcac
      841 taatatcttt gggagacgct ctgtctcttc catcccagtc ccccaagatg tcgtggacac
      901 tcatcctgct tctggtaaag atgtgagagt cccaactact gcctcgtatg tctttgatgc
      961 acatgacgga gaggtcaatg cagtacagtt cagtccaggc tcccggttac tggccactgg
     1021 aggcatggac cgcagggtta aactttggga agcattcgga gataaatgtg aattcaaggg
     1081 ctccctgtct ggcagcaatg cgggaattac aagcattgaa tttgatagtg ctggagctta
     1141 cctattagca gcttcaaatg attttgcaag ccgaatctgg actgtggatg attatcgatt
     1201 acggcacaca cttaccggcc acagcgggaa agttctctct gccaagttcc tgctggacaa
     1261 tgcacggata gtctcaggaa gtcatgaccg gaccctcaaa ctctgggatc tccgcagcaa
     1321 agtctgtatc aaaacagtgt tcgcagggtc cagctgcaat gacattgttt gcactgagca
     1381 atgtgtaatg agtggacatt ttgacaagaa aattcgtttc tgggatatcc ggtcagagag
     1441 tgtggtccga gagatggaac tgttagggaa gatcactgct ctggacttaa accccgagag
     1501 gactgagctc ctgagctgct cccgtgatga cctgctaaaa atcattgacc tgcggacaaa
     1561 cgccatcaag cagtcattca gtgcacctgg attcaagtgt ggctctgact ggacccgagt
     1621 tgtcttcagc cctgatggca gttacgtggc agcaggctca gctgacggct ctctttatgt
     1681 atggagtgtg ctcacgggga aagtagagaa ggttctctcc aagcagcaca gctcttctat
     1741 caatgcggtg gcgtgggccc cctctggctt acatgttgtc agtgtggaca aaggaagcag
     1801 agctgtgcta tgggcacagc cttgatgcca ctccctgagg agcagcgtgg gaccccgcag
     1861 cccattttgg agaatgatgt gtcctcccag agaagagctg aagctatatg gcacccaccg
     1921 tacctttcct aagaactttg acttaaggtc tctaatgggt gagaagaacc aacacagaac
     1981 caaactgact cgcacgtccc tagcaggggt tccggttctt gtcgcatgtg ggtgggaaac
     2041 actactaact ctgaccttcc atacctcatg gggagcacag ggtccctgct gggtctcccc
     2101 actggacaca gtgccaagga cagccccaca catcgggtat tgggtcccct gtgcttttcc
     2161 cgtctttcca aagtctgttg tagcctgatg cacacccctt ttctgtgggg tcacttaccc
     2221 agggggctca ctgaaggcat tgggttagtg gaaaccaaat cagggcctgt cctcctgtga
     2281 caaaggatgg gtggggctgt tttcagggct ggtgatatgt ctggtctcac tgctgaaacc
     2341 tgcatcttga gctggccttc agaactccga gctcccttcc tgccaacacc tacacatagc
     2401 tttgtgtgtg cgaggaaaga actgtgccaa cctttccctg tccggtagaa tttgccgctg
     2461 aaatgagaaa cacatcttta cccagcatca ctgccagtca cagcagtggc ttagcgctca
     2521 tctggagctg gtggtgggga gtccagccac tgcctgtgta tgcagtgtag tgttggtaag
     2581 agaagcctat ctgggagctg gtcatgctga aggctgggaa agcaccctct gtcctgctta
     2641 cccatgcaca cggtctgagc acggtgtctg ggtgtccaaa gcaccacgtt tgtcacattt
     2701 actttgcact ttattttttg cttccgcgct ggctctctgg acagtaggaa cagacatgag
     2761 ttctagaact agggaagagg gacagcagtc cttccctgct tgcaactcac ctgtcattcg
     2821 ctgccagaga gctagtggtg ttgggagttg agagtggctg gccagggcac atcttttatt
     2881 tatttaatta tgtgtcccaa cagaacttga ctgtaaataa agaagaaatt ctgttatata
     2941 cttttcaaa
//
