LOCUS       NM_001080548            4824 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus USP6 N-terminal like (Usp6nl), transcript variant 2,
            mRNA.
ACCESSION   NM_001080548
VERSION     NM_001080548.1
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 4824)
  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 4824)
  AUTHORS   Palamidessi,A., Frittoli,E., Ducano,N., Offenhauser,N.,
            Sigismund,S., Kajiho,H., Parazzoli,D., Oldani,A., Gobbi,M.,
            Serini,G., Di Fiore,P.P., Scita,G. and Lanzetti,L.
  TITLE     The GTPase-activating protein RN-tre controls focal adhesion
            turnover and cell migration
  JOURNAL   Curr Biol 23 (23), 2355-2364 (2013)
   PUBMED   24239119
  REMARK    GeneRIF: these findings identify RN-tre as the Rab5-GAP that
            spatiotemporally controls focal adhesion remodeling during
            chemotactic cell migration.
REFERENCE   3  (bases 1 to 4824)
  AUTHORS   Okazaki,N., Kikuno,R., Ohara,R., Inamoto,S., Koseki,H., Hiraoka,S.,
            Saga,Y., Nagase,T., Ohara,O. and Koga,H.
  TITLE     Prediction of the coding sequences of mouse homologues of KIAA
            gene: III. the complete nucleotide sequences of 500 mouse
            KIAA-homologous cDNAs identified by screening of terminal sequences
            of cDNA clones randomly sampled from size-fractionated libraries
  JOURNAL   DNA Res 10 (4), 167-180 (2003)
   PUBMED   14621295
REFERENCE   4  (bases 1 to 4824)
  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
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BE949333.1, AK129037.1 and AL845515.5.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK084045.1, AK155073.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849375, SAMN00849380
                                           [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
            1-226               BE949333.1         91-316
            227-4499            AK129037.1         79-4351
            4500-4824           AL845515.5         25037-25361
FEATURES             Location/Qualifiers
     source          1..4824
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="2"
                     /map="2 3.63 cM"
     gene            1..4824
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /note="USP6 N-terminal like"
                     /db_xref="GeneID:98910"
                     /db_xref="MGI:MGI:2138893"
     exon            1..198
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /inference="alignment:Splign:2.1.0"
     exon            199..290
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /inference="alignment:Splign:2.1.0"
     CDS             287..2746
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /note="isoform b is encoded by transcript variant 2; USP6
                     N-terminal-like protein; novel TBC domain containing
                     protein"
                     /codon_start=1
                     /product="USP6 N-terminal-like protein isoform b"
                     /protein_id="NP_001074017.1"
                     /db_xref="CCDS:CCDS38043.1"
                     /db_xref="GeneID:98910"
                     /db_xref="MGI:MGI:2138893"
                     /translation="MNSDQDVALKLAQERAEIVAKYDRGREGAEIEPWEDADYLVYKV
                     TDRFGFLHEEELPYHNAAADRQKQLEIERTSKWLKMLKKWERYKNTEKFHRRIYKGIP
                     LQLRGEVWALLLEIPKMKEETRDLYSKLKHRARGCSPDIRQIDLDVNRTFRDHIMFRD
                     RYGVKQQSLFHVLAAYSIYNTEVGYCQGMSQITALLLMYMNEEDAFWALVKLFSGPKH
                     AMHGFFVQGFPKLLRFQEHHEKILNKFLSKLKQHLDSQEIYTSFYTMKWFFQCFLDRT
                     PFRLNLRIWDIYIFEGERVLTAMSYTILKLHKKHLMKLSMEELVEFLQETLAKDFFFE
                     DDFVIEQLQVSMAELKRAKLDLPEPGKEDEYPKKPLGQLPPESACVNHLSNGQRSVGR
                     PSPKTSSRREDGSPRKNHEHSPVHHSRNGTPERAGQSRRKSVDEGSKNLKHEAESQRK
                     PSPGMQDSSRHYNHAAANQNSNAISNVRKEFMPKWRKPSDASAIERTTKYAVEGKSHS
                     ALPALPVAIPGSAETRLPNSRQKMKALDGGEGKRGSNASQYDNVPGGESEHGASAEEG
                     PERTHPHSPRKHPEPSPSPPKVPNKFTFKVQPPSHVRYPPQLPEEDHRAAYPPSYSNP
                     PVYHGNSPKHVPTAHSGFVSTQISPRPQINPSRRPYGSSLSVDTSPEKAYSRPTPVVL
                     PSSRIEVLPIDMGARGYGSSGSPKNGQFILPPVDYLPENRKWSEVSYTYRPEMHGQSW
                     TRDAHRSHLSNLPNYAAFQHIPFQAHGLPEVSVDSPVRYKMSAAVEDASPPGYPYAGP
                     SPSAHHYRNGEGLSVQESVLL"
     exon            291..358
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /inference="alignment:Splign:2.1.0"
     exon            359..441
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /inference="alignment:Splign:2.1.0"
     exon            442..481
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /inference="alignment:Splign:2.1.0"
     exon            482..562
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /inference="alignment:Splign:2.1.0"
     exon            563..670
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /inference="alignment:Splign:2.1.0"
     exon            671..780
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /inference="alignment:Splign:2.1.0"
     exon            781..829
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /inference="alignment:Splign:2.1.0"
     exon            830..950
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /inference="alignment:Splign:2.1.0"
     exon            951..1045
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /inference="alignment:Splign:2.1.0"
     exon            1046..1111
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /inference="alignment:Splign:2.1.0"
     exon            1112..1211
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /inference="alignment:Splign:2.1.0"
     exon            1212..1364
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /inference="alignment:Splign:2.1.0"
     exon            1365..4824
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4139..4144
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /note="hexamer: ATTAAA"
     polyA_site      4170
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /note="major polyA site"
     polyA_site      4499
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /note="major polyA site"
     regulatory      4804..4809
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
                     /note="hexamer: AAGAAA"
     polyA_site      4824
                     /gene="Usp6nl"
                     /gene_synonym="mKIAA0019; RNTRE; TRE2NL"
ORIGIN      
        1 gggggccgtt tccatagcgg cggcggctgg aggtgtcgcg ccggggaact tcctggttcc
       61 cgggctcggc tttgccggga gcctcctgga agggaaacaa tggggcggag ggcactgcgg
      121 tagccgccgc cgccgccgcg ccggacctct cggcctcccg cgactggccg ccgccgccgc
      181 cgccgggacc gcttggagaa caggatatgt attcctctga gaaaccctgg acagcagatc
      241 ttggtttaat actggattgg aacaacaccc acagaggttt gcagtcatga attccgacca
      301 ggatgtagca ctcaaacttg ctcaagaacg agctgaaata gttgctaaat atgacagagg
      361 gcgggaaggt gcagagatcg agccctggga agatgctgat tatcttgttt acaaagtcac
      421 cgatagattt ggctttttac atgaggagga gctcccatac cataatgcag ctgcggaccg
      481 gcaaaagcaa ctggaaatcg aaaggacttc caagtggctg aaaatgctga aaaaatggga
      541 gagatacaag aacaccgaga agtttcatcg acgaatttac aaaggaattc cactccagct
      601 ccgaggtgaa gtctgggctc ttcttcttga gatccctaaa atgaaagaag aaacaagaga
      661 cctttatagt aaattaaaac acagagcacg gggttgttca cctgatatca gacaaataga
      721 ccttgacgtg aaccgcacat tcagggacca tattatgttt agagacagat acggtgttaa
      781 gcaacagtcc ttattccatg ttctcgctgc ttattctatc tataatacgg aagtcgggta
      841 ctgccaaggg atgagtcaga tcacggcctt gctcctcatg tacatgaacg aggaagacgc
      901 cttctgggcc ctggtcaagc tcttctcggg ccccaagcac gcaatgcacg gtttttttgt
      961 ccaaggtttt cctaaactct tgagatttca agaacatcat gagaaaattc tgaacaaatt
     1021 tttgtccaaa cttaagcagc acttggattc tcaagaaatc tacacaagtt tttacacaat
     1081 gaaatggttt tttcagtgtt tccttgatcg aactcccttc aggctgaacc tcaggatatg
     1141 ggacatctat atctttgaag gagagcgagt ccttactgct atgtcttaca caatcttgaa
     1201 actacacaaa aagcatctga tgaagttgtc tatggaagaa cttgtagaat ttcttcagga
     1261 gactctcgcc aaggattttt tcttcgagga tgattttgta atagagcaac ttcaagtttc
     1321 tatggcagaa ctaaagcggg caaagttaga tctcccagag cctggtaagg aggatgaata
     1381 tccaaagaaa cccttggggc agcttccacc tgagtctgct tgtgttaatc acttgagcaa
     1441 cggacaaaga agtgttggcc ggcccagccc caaaacaagc agcaggagag aagatggatc
     1501 gcctcgcaag aaccatgagc actctcctgt ccatcacagt agaaacggca caccagaaag
     1561 agccggccag tcacggcgga agtccgtgga tgaggggagt aaaaatctca agcatgaggc
     1621 agagtctcag agaaaacctt caccgggtat gcaggacagt tccagacact ataaccatgc
     1681 agctgctaac caaaatagca atgcaatttc aaacgtcagg aaggaattta tgcccaagtg
     1741 gagaaaacca tcagatgcct cagctattga aagaactact aaatatgccg tcgaaggcaa
     1801 aagtcactca gctcttcccg ctcttcccgt cgccatccca ggctctgctg agacccgatt
     1861 gccaaactca aggcagaaga tgaaggcttt ggatgggggt gaagggaagc ggggttctaa
     1921 cgcttcccag tatgacaacg tgcctggggg tgagagtgag catggggcat ctgcggaaga
     1981 gggaccagag cggactcacc ctcacagtcc aaggaagcac ccggagccaa gtcccagtcc
     2041 tccaaaagta cccaacaagt ttacgtttaa agtgcagcct cccagccatg tacgataccc
     2101 accccagcta ccagaggagg accacagagc tgcatatcca ccctcctaca gcaacccccc
     2161 tgtctaccat ggaaattctc caaaacacgt ccctactgct cacagtggtt ttgtgtctac
     2221 acagatcagc cccaggcctc aaattaaccc ttccaggaga ccttacggtt cctctctttc
     2281 agttgacact tctccagaga aagcctacag ccgcccaact cctgttgttc tgccctctag
     2341 tcgaattgaa gtccttccca ttgacatggg tgccaggggc tacggcagtt cggggtcacc
     2401 aaagaatgga cagttcatcc ttcctccggt ggactatttg ccagagaaca gaaaatggtc
     2461 agaagttagt tacacataca gaccggagat gcatggccaa tcatggactc gggatgctca
     2521 ccgtagccac ttaagcaatt taccaaacta tgcagccttt cagcacatac cgtttcaggc
     2581 ccatggcctt ccagaagtgt ctgtagacag tccagtgagg tataagatgt ctgcagctgt
     2641 ggaagatgcc agtcctcctg ggtatccata tgcagggccc tcaccttccg cacatcacta
     2701 cagaaatgga gagggacttt ctgtgcagga atcagtgttg ctgtgagcgt gtggctgtat
     2761 tcactgacaa gagaatagaa acaatatgcc cacattgcta tgtttataat tgccagagca
     2821 gtatttttta tattgtaaac agcgtgcgca gctcagtgtg tgtcagtgat aagagtgtgg
     2881 gaaggcttca tcctctgcag aggctgctga agaagagtgg gtcagctgca tcctggctga
     2941 acctttaata ggggaccctg gggacccagc agtagcacga gggctgcaca cacagggcgg
     3001 ctctctgtgc tggtcccttc gtagctcccc agacccgctc tgttccgttg ctgttagaac
     3061 agtagactac tgaccgctat agagcagata ctctgagggc cgaccctcgc cttttcatag
     3121 acagacgagg caactgcata taggttttgt ctttaaaacc acctttaatc tagatacata
     3181 gactaacagt ggattttttt taacccttta tctttctgcc caccctgccc aaacatattt
     3241 taacccaggt tctaaactga aactgactag agatgaatcc agcgcctgac agaatgtcat
     3301 tctccttcag ttgctgccat tttatctcct cctgaaagct aaaggctcac cacttgatgg
     3361 tgcctaaagt gggtcggtta cccgagtgag cggctgcaca gtgctcactg agtcccctca
     3421 tctccagcag tcttggtgct gctgtgcccc gggctctggt ctggccgggt gtgagggaag
     3481 tcagaccttg cagggcccca ggccgcagaa gattgcattt cacagtcgtg gggaagcagc
     3541 tctaaccata aggaaggctg cttctcaccc tgcttcccct tctcacaggc tttctctggc
     3601 actcggtctt cacagagcac agtgggtgga tactgctaac acttactggg ccccggtcga
     3661 aattgtgaaa aataccctaa tgattaataa ggaattttaa tctagaattt tgatctttgt
     3721 aaaaaaaggg gaaaaagggt agtttgtttc atacttttgg aatttttttt cagtgaaaaa
     3781 taactgaagt tcatggtttt taaaaaaggt gatgattcct tttatgctat cacacactac
     3841 tgtcaccgag acactgacaa agtgctgggt tctccaagag cgatggcggc gtctgtgtag
     3901 gtgctcgccc accgttaccc tcttcttgta tctgaatatc agaaactaga aagtccaaca
     3961 gtgacactcc ccctgctcca aggtggggac ttaagtttgt gaggtacaag aatatgtttt
     4021 catgaaagta acattgttta tctagcaaac gtgacaatat ttttatgtat ataatgattc
     4081 taatctaagt taattaatgt ggtaatgatg ttattaagtg tggaagcaaa tgcagtatat
     4141 taaaggtgaa caccacactg aaactcccaa ctcctgacag aataaccagg ctcttgattt
     4201 agatcatgtg gaaggtgaga tataaatgta tatagacatg tagctgagga tattaatttc
     4261 agtcttaaag tgtgacttgt aaggagccaa gctgtacagt ttagttcatg atggcagctc
     4321 tctgcctctt cagaaagtat atatcatagt ggtaaataat gtagattata tatatacata
     4381 tatatatata tatatgctat atatggacac actattttct tatgtcatct atggcatttt
     4441 tttatctgta tactttttga tgtggttgat tgtttttaac atgctaaaag taatccgtgt
     4501 attttgttct gtgtcttctg tgtgcagctt ccccgtggca agtgtgtcct ggccttgcag
     4561 ggcctggcag atgcaccacg ggctcaccag cagcgtttac ccacgctgtg cttctctgct
     4621 tgcatttcca gggagaccgt gttttgaacc gcatcacctt tccttggctt aagcattcgt
     4681 tactaatggc aggaaagtct tcccttctat aagatatata tctctgttag cttcaagtag
     4741 gaaattttaa tttaaaatta ttttgccact ataaaatttt attttaaatt tatttttaaa
     4801 taaaagaaat gataagagaa ataa
//
