LOCUS       NM_001417864            3859 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Mus musculus WD repeat domain, phosphoinositide interacting 2
            (Wipi2), transcript variant 2, mRNA.
ACCESSION   NM_001417864 XM_006504752
VERSION     NM_001417864.1
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 3859)
  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 3859)
  AUTHORS   Zhao,Y., Zou,Z., Sun,D., Li,Y., Sinha,S.C., Yu,L., Bennett,L. and
            Levine,B.
  TITLE     GLIPR2 is a negative regulator of autophagy and the
            BECN1-ATG14-containing phosphatidylinositol 3-kinase complex
  JOURNAL   Autophagy 17 (10), 2891-2904 (2021)
   PUBMED   33222586
REFERENCE   3  (bases 1 to 3859)
  AUTHORS   Ivankovic,D., Drew,J., Lesept,F., White,I.J., Lopez Domenech,G.,
            Tooze,S.A. and Kittler,J.T.
  TITLE     Axonal autophagosome maturation defect through failure of ATG9A
            sorting underpins pathology in AP-4 deficiency syndrome
  JOURNAL   Autophagy 16 (3), 391-407 (2020)
   PUBMED   31142229
REFERENCE   4  (bases 1 to 3859)
  AUTHORS   Stavoe,A.K.H. and Holzbaur,E.L.F.
  TITLE     Neuronal autophagy declines substantially with age and is rescued
            by overexpression of WIPI2
  JOURNAL   Autophagy 16 (2), 371-372 (2020)
   PUBMED   31794336
  REMARK    GeneRIF: Neuronal autophagy declines substantially with age and is
            rescued by overexpression of WIPI2.
REFERENCE   5  (bases 1 to 3859)
  AUTHORS   Stavoe,A.K., Gopal,P.P., Gubas,A., Tooze,S.A. and Holzbaur,E.L.
  TITLE     Expression of WIPI2B counteracts age-related decline in
            autophagosome biogenesis in neurons
  JOURNAL   Elife 8, e44219 (2019)
   PUBMED   31309927
  REMARK    GeneRIF: Importantly, ectopically expressing WIPI2B effectively
            restored autophagosome biogenesis in aged neurons.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 3859)
  AUTHORS   Bansal,M., Moharir,S.C., Sailasree,S.P., Sirohi,K., Sudhakar,C.,
            Sarathi,D.P., Lakshmi,B.J., Buono,M., Kumar,S. and Swarup,G.
  TITLE     Optineurin promotes autophagosome formation by recruiting the
            autophagy-related Atg12-5-16L1 complex to phagophores containing
            the Wipi2 protein
  JOURNAL   J Biol Chem 293 (1), 132-147 (2018)
   PUBMED   29133525
REFERENCE   7  (bases 1 to 3859)
  AUTHORS   Zhao,Y.G., Chen,Y., Miao,G., Zhao,H., Qu,W., Li,D., Wang,Z.,
            Liu,N., Li,L., Chen,S., Liu,P., Feng,D. and Zhang,H.
  TITLE     The ER-Localized Transmembrane Protein EPG-3/VMP1 Regulates SERCA
            Activity to Control ER-Isolation Membrane Contacts for
            Autophagosome Formation
  JOURNAL   Mol Cell 67 (6), 974-989 (2017)
   PUBMED   28890335
REFERENCE   8  (bases 1 to 3859)
  AUTHORS   Akinduro,O., Sully,K., Patel,A., Robinson,D.J., Chikh,A.,
            McPhail,G., Braun,K.M., Philpott,M.P., Harwood,C.A., Byrne,C.,
            O'Shaughnessy,R.F.L. and Bergamaschi,D.
  TITLE     Constitutive Autophagy and Nucleophagy during Epidermal
            Differentiation
  JOURNAL   J Invest Dermatol 136 (7), 1460-1470 (2016)
   PUBMED   27021405
REFERENCE   9  (bases 1 to 3859)
  AUTHORS   Dooley,H.C., Razi,M., Polson,H.E., Girardin,S.E., Wilson,M.I. and
            Tooze,S.A.
  TITLE     WIPI2 links LC3 conjugation with PI3P, autophagosome formation, and
            pathogen clearance by recruiting Atg12-5-16L1
  JOURNAL   Mol Cell 55 (2), 238-252 (2014)
   PUBMED   24954904
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC158310.3 and AC105987.21.
            
            On Mar 10, 2023 this sequence version replaced XM_006504752.5.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR7345562.2009551.1,
                                           SRR17784650.468139.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-278               AC158310.3         205736-206013
            279-448             AC105987.21        32474-32643         c
            449-545             AC105987.21        30203-30299         c
            546-643             AC105987.21        29329-29426         c
            644-736             AC105987.21        28866-28958         c
            737-807             AC105987.21        27396-27466         c
            808-915             AC105987.21        25349-25456         c
            916-1080            AC105987.21        24002-24166         c
            1081-1188           AC105987.21        22961-23068         c
            1189-1346           AC105987.21        22240-22397         c
            1347-3859           AC105987.21        19119-21631         c
FEATURES             Location/Qualifiers
     source          1..3859
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="5"
                     /map="5 81.53 cM"
     gene            1..3859
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
                     /note="WD repeat domain, phosphoinositide interacting 2"
                     /db_xref="GeneID:74781"
                     /db_xref="MGI:MGI:1923831"
     exon            1..278
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            279..448
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            449..545
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
                     /inference="alignment:Splign:2.1.0"
     CDS             500..1459
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
                     /note="isoform 2 is encoded by transcript variant 2; WD
                     repeat domain phosphoinositide-interacting protein 2;
                     WIPI-2"
                     /codon_start=1
                     /product="WD repeat domain phosphoinositide-interacting
                     protein 2 isoform 2"
                     /protein_id="NP_001404793.1"
                     /db_xref="GeneID:74781"
                     /db_xref="MGI:MGI:1923831"
                     /translation="MKVLHTIRETPPNPAGLCALSINNDNCYLAYPGSASIGEVQVFD
                     TINLRAANMIPAHDSPLAALAFDASGTKLATASEKGTVIRVFSIPEGQKLFEFRRGVK
                     RCVSICSLAFSMDGMFLSASSNTETVHIFKLEAVREKPPEEPTTWTGYFGKVLMASTS
                     YLPSQVTEMFNQGRAFATVRLPFCGHKNICSLTTIQKIPRLLVGASDGYLYMYNLDPQ
                     EGGECALMRQHRLDGSMETTSEIVDSASHDCPLATQTYGTAAAKGAYVPSSPTRLGKG
                     QDANLEAYTDDLGAVGGACLEDEASALRLDEDSEHPPMILRTD"
     exon            546..643
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            644..736
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            737..807
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            808..915
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            916..1080
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1081..1188
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1189..1346
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1347..3859
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1612..1617
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
                     /note="hexamer: AATACA"
     polyA_site      1639
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
                     /note="major polyA site"
     regulatory      2002..2007
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
                     /note="hexamer: ATTAAA"
     polyA_site      2023
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
     polyA_site      3859
                     /gene="Wipi2"
                     /gene_synonym="1110018O08Rik; 2510001I10Rik"
ORIGIN      
        1 gcagcccgtc ccggctctgg agcataaaca agagtgggga cgggatgagg cggcagttgg
       61 tccccgcgca gcgagaggcg gcgagcgggg cgacctgccg gaccggacgt cgatcctgag
      121 tgtagcgtgc tcccgcgggc cgcccgagtc gagctgcgcg cgctcccgcc aaggggggtc
      181 cgaggccgtc gcgcgctcgc agccatgaac ctggcgagcc agagcggaga ggccggcgcc
      241 ggccagctgc tgttcgccaa cttcaaccag gataacacct gacactgaag atgtctgcat
      301 tgtggagaga ttgttctcaa gcagcttggt ggccattgtc agcctcaaag ctcccaggaa
      361 gctgaaggtt tgccatttta agaagggaac tgagatatgc aactacagct actccaacac
      421 tatcctggct gtgaagctga acaggcagcg gctcattgtg tgtctggaag agtcgctcta
      481 catacacaac atccgggaca tgaaggtact tcataccatc cgagagacac ccccaaaccc
      541 tgcaggcttg tgtgcactgt caataaacaa tgacaactgc tacttggcgt atccagggag
      601 tgcgagcatt ggagaggtgc aggtcttcga caccattaac ttgagagctg caaacatgat
      661 cccagctcat gatagtccct tagcagccct ggcttttgat gcaagtggga ccaagcttgc
      721 cactgcttct gagaagggga ctgtgattcg ggtgttttcc attccagagg gacagaagct
      781 gtttgagttc aggagaggag tgaagaggtg tgtgagcatc tgctccctgg ccttcagcat
      841 ggacggcatg ttcctctccg catccagcaa caccgaaaca gtgcacatct tcaaacttga
      901 ggctgtgagg gaaaaacctc cggaagagcc caccacctgg actggctact ttgggaaggt
      961 tctcatggca tctaccagct acctgccctc acaagtgaca gaaatgttca accagggcag
     1021 ggccttcgcc actgtccgcc tgccattctg tggccacaaa aacatctgct cactaaccac
     1081 aattcagaag atcccacggt tgctggtagg agcatcagat ggctatttgt acatgtacaa
     1141 cctggacccc caggagggag gcgagtgtgc gctgatgcgt cagcacaggc ttgatggcag
     1201 tatggagacg accagtgaaa tcgtagactc tgcatctcat gactgcccct tagcaacaca
     1261 gacgtacggc acagcagctg ccaaaggtgc ctatgtgccc tcgtccccca caagacttgg
     1321 gaaagggcag gacgccaact tagaagccta cacagatgac ctgggtgctg tgggtggtgc
     1381 atgcctagag gatgaagcca gcgctctgcg cctggatgaa gacagcgaac atcctcccat
     1441 gattctccgg actgactgat cctgacctgt gaactctggc ccaggagcag acaacactgc
     1501 ctggctgagg acttgagcat tgctgctatg aactttgacc tgaattgagg gagaggatgg
     1561 cagagactta aagcagaggt tgtagttata gcctatccat actgttgaga aaatacagtt
     1621 ttcacttcag tgactttaat cctgcttatg aatttagctt tttattttct ctcactcttt
     1681 aattttttta atcttttttt ttcttttttc tttttctttt ttgccaaaat taactatttg
     1741 gtgaagtctg tggagtctcc ttgctttgca tgtgtgatgt gccaagccag cataggagag
     1801 caagtggagt ggccactcca tagcaaacca cagttgtcag gtctcatgcc agggcacgca
     1861 tgaagaagtc tgcgtgcagt gattctgcag ggacagggcc catgtgccca ccaagaccag
     1921 ccagggcacc agtggacagt ggcctctgtc aggagtcctc ttgccctact gccccacctg
     1981 ggccattttc cctcccaatt tattaaactc tttccagatt ggatcattct gggactagct
     2041 tcctccacgg ggggactgtt gttctgggtc ttagtctcca tgggcatctt gagagggaga
     2101 ggggcagttt ctgctctctg tgccttctct tctgacaggt gaacttggca gtctaccagg
     2161 gcagcctgga accaagaaag gtgatgtcgt cagtgtcgtt aaatgctctg tctcctcctg
     2221 tccccatcca taactgtgac ttggcttttt gttttttttg tttttaaagg agagtctata
     2281 gctactccaa ttcccaaaaa agcacaaagg tgtaagatgc taggtcaggg tcagcctctg
     2341 cggacctgga gcagtggtgt ctgccagagg ctctcctccc tccccagaca tagcagagag
     2401 tagaggggcc cctccccctc ccagggaggc ggcaggagat tccctcccgg ggtgatgtgc
     2461 cttttctttt ggtcttacaa gggcaggaaa gtgaggtcag atgtcagtgc tgccctgtgc
     2521 ctgtctgctt ttgattgttt gctatttggg gggaaggtgt ggtctcacac tacaccccag
     2581 gccctggaac tcactatata gcccaggctg gtctcagact caaagtagtc cccctgcctc
     2641 aacttcctgt gagttggaat tacaggtact gctgtgctag gctccattct cagctctata
     2701 gaataaaaag ttgaggtcct caaatctgca ttctaaagaa cagagcctaa cagtggagcc
     2761 caagggcgtg gctgtggctt ctgcatgact atggctttag gtgcaggggt tttggagtag
     2821 gaaatctgga taatgttggg gtaccaggtt aatccagccg gataagaggg actacaggta
     2881 gctgccttca ggcctgtgtg gttatgtctg gtagagtata tctgcagggt gcctgtagct
     2941 aaatctgctg aggttccctg tttctgctgt tcaaggatag ctaatcacat aattggggtt
     3001 tgaggggcgc ccactgttag ctctggctgc tgttggcacc tgtgccctgg agcatccgag
     3061 gagccaaaca gtatgaggca gggttaggct gcgtgtgctg gactttaaac tatgaatttt
     3121 ctggacccta ataacatggg accccagcct gtggcctagt tcagtgactg cttcactggg
     3181 agactaaaac tggccttcac aggaaccgac tgtgggaagc acacggggct gattgggagc
     3241 cggggtttcc tggaaccaaa gagtgtggct gttgtgctgg tgaccttggc tttgtgctct
     3301 gggtttggag ctcagctccc tctgctgagg cctctctagg gagctggggt ctcacagaca
     3361 gtggagttca cgtctcccta aagcataggt ttcctcactt ggaaacttgg ttagaaaaag
     3421 gccgctcctg gggtctgggg ctgtgccttc catcagtggt cttgccaggc tgtgcaaatt
     3481 tggtgagcct tcctctcttg ggacagatgt gcccgtgcat cccacagagg tcagaaaagc
     3541 aaaggattag gctgtgacct caggcaatct gtacagcact cgcaggcctc aggtgaggga
     3601 ggagagagtg gctggctgag gtcagcactc actgttggga tgcacacggt agagccaagc
     3661 ctcagcaggg ctcaggttca aaggtaagaa cattttggaa tccggtgtgg cacacacctg
     3721 taatcccagc agtcaagaga gtgaggcagg agcatggctg taaatttgag gccagtctag
     3781 actatatact cctgggcaaa cctggcctac agagtgagac cctgtctcaa aaaaccaaag
     3841 gatgatgact ttaagaaaa
//
