LOCUS       NM_001252132            4646 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus leucine-rich repeats and calponin homology (CH) domain
            containing 1 (Lrch1), transcript variant 2, mRNA.
ACCESSION   NM_001252132
VERSION     NM_001252132.1
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 4646)
  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 4646)
  AUTHORS   Liu,C., Xu,X., Han,L., Wan,X., Zheng,L., Li,C., Liao,Z., Xiao,J.,
            Zhong,R., Zheng,X., Wang,Q., Li,Z., Chen,H., Wei,B. and Wang,H.
  TITLE     LRCH1 deficiency enhances LAT signalosome formation and CD8+ T cell
            responses against tumors and pathogens
  JOURNAL   Proc Natl Acad Sci U S A 117 (32), 19388-19398 (2020)
   PUBMED   32727906
  REMARK    GeneRIF: LRCH1 deficiency enhances LAT signalosome formation and
            CD8(+) T cell responses against tumors and pathogens.
REFERENCE   3  (bases 1 to 4646)
  AUTHORS   Xu,X., Han,L., Zhao,G., Xue,S., Gao,Y., Xiao,J., Zhang,S., Chen,P.,
            Wu,Z.Y., Ding,J., Hu,R., Wei,B. and Wang,H.
  TITLE     LRCH1 interferes with DOCK8-Cdc42-induced T cell migration and
            ameliorates experimental autoimmune encephalomyelitis
  JOURNAL   J Exp Med 214 (1), 209-226 (2017)
   PUBMED   28028151
  REMARK    GeneRIF: LRCH1 as a novel effector to restrain PKCalpha-DOCK8-Cdc42
            module-induced T cell migration and ameliorate EAE.
REFERENCE   4  (bases 1 to 4646)
  AUTHORS   Koscielny,G., Yaikhom,G., Iyer,V., Meehan,T.F., Morgan,H.,
            Atienza-Herrero,J., Blake,A., Chen,C.K., Easty,R., Di Fenza,A.,
            Fiegel,T., Grifiths,M., Horne,A., Karp,N.A., Kurbatova,N.,
            Mason,J.C., Matthews,P., Oakley,D.J., Qazi,A., Regnart,J.,
            Retha,A., Santos,L.A., Sneddon,D.J., Warren,J., Westerberg,H.,
            Wilson,R.J., Melvin,D.G., Smedley,D., Brown,S.D., Flicek,P.,
            Skarnes,W.C., Mallon,A.M. and Parkinson,H.
  TITLE     The International Mouse Phenotyping Consortium Web Portal, a
            unified point of access for knockout mice and related phenotyping
            data
  JOURNAL   Nucleic Acids Res 42 (Database issue), D802-D809 (2014)
   PUBMED   24194600
REFERENCE   5  (bases 1 to 4646)
  AUTHORS   Tamplin,O.J., Kinzel,D., Cox,B.J., Bell,C.E., Rossant,J. and
            Lickert,H.
  TITLE     Microarray analysis of Foxa2 mutant mouse embryos reveals novel
            gene expression and inductive roles for the gastrula organizer and
            its derivatives
  JOURNAL   BMC Genomics 9, 511 (2008)
   PUBMED   18973680
  REMARK    Publication Status: Online-Only
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BB612742.1, AK143909.1, AK160965.1 and BC028469.1.
            
            Transcript Variant: This variant (2) lacks an alternate in-frame
            exon in the 3' coding region, compared to variant 1, resulting in
            an isoform (2) that is shorter than isoform 1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK143909.1, SRR13948564.411497.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMN00849374,
                                           SAMN00849375 [ECO:0006172]
            ##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
            1-5                 BB612742.1         3-7
            6-2800              AK143909.1         5-2799
            2801-4275           AK160965.1         617-2091
            4276-4646           BC028469.1         744-1114
FEATURES             Location/Qualifiers
     source          1..4646
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="14"
                     /map="14 39.39 cM"
     gene            1..4646
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /note="leucine-rich repeats and calponin homology (CH)
                     domain containing 1"
                     /db_xref="GeneID:380916"
                     /db_xref="MGI:MGI:2443390"
     exon            1..494
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     CDS             218..2266
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /note="isoform 2 is encoded by transcript variant 2;
                     leucine-rich repeat and calponin homology
                     domain-containing protein 1"
                     /codon_start=1
                     /product="leucine-rich repeat and calponin homology
                     domain-containing protein 1 isoform 2"
                     /protein_id="NP_001239061.1"
                     /db_xref="CCDS:CCDS88714.1"
                     /db_xref="GeneID:380916"
                     /db_xref="MGI:MGI:2443390"
                     /translation="MATPGSEPQAFAPALSVTALHPHLHQHHQHHQHHQHHGGTGGTG
                     FNLPLNRGLERALEEAANSGGLNLSARKLKEFPRTTAPGHDLSDTVRADLSKNRLVEV
                     PMELCQFVSLEILNLYHNCIRVIPEAIVNLQMLTHLNLSRNQLSALPACLCGLPLKVL
                     IASNNKLGSLPEEIGQLKQLMELDVSCNEITALPQQIGQLKSLRELNVRRNYLKVLPP
                     ELVDLPLVKFDFSCNKVLVIPVCFREMKQLQVLLLENNPLQSPPAQICTKGKVHIFKY
                     LSIQACQIKTSDSLYLPTIERPHLHQHVEDSKKDSDSGVGSDNGDKRLSATEPSDEDT
                     VSLNAPMSNIVEEDQTIKEDACHRLTPTKGEFQPKPSILGDSGISGQEREQLAGRADA
                     RHSGLMNYIKDQAEDCEELLRIEEDAHWHMEELLNSSKDRELDIAMIEQLREAELLQD
                     PNGLSADIIERSILNLFPMDSGEASEFPDPSLNGQLQLETSPDREVQNDLMLQSNGSQ
                     YSPNEIRENSPSVSPTANITAPFGLKPRSVFLRPQRNLESIDPQFTIRRKMEQMREEK
                     ELVEQLRESIEMRLKVTLHEDLGAALMDGVVLCHLANHVRPRSVASIHVPSPAVPKLS
                     MAKCRRNVENFLEACRKLGVPEEKLCLPHHILEEKGLVKVGTTVQALLDVTVTKALFT
                     "
     exon            495..639
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     exon            640..766
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     exon            767..872
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     exon            873..1009
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     exon            1010..1137
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     exon            1138..1201
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     exon            1202..1307
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     exon            1308..1423
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     exon            1424..1491
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     exon            1492..1575
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     exon            1576..1665
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     exon            1666..1702
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     exon            1703..1756
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     exon            1757..1829
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     exon            1830..1939
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     exon            1940..2077
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     exon            2078..2155
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     exon            2156..4626
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3187..3192
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /note="hexamer: ATTAAA"
     polyA_site      3211
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /note="major polyA site"
     regulatory      4600..4605
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /note="hexamer: ATTAAA"
     polyA_site      4624
                     /gene="Lrch1"
                     /gene_synonym="4832412D13Rik; Chdc1; mKIAA1016"
                     /note="major polyA site"
ORIGIN      
        1 agacacaggc gcgccaccgc tgccgtcgct gccgccgccg cagcccttgg ctcccccggc
       61 tggaaacctt ggcgatcgaa ctgctgcctc cacctctgcg ccgcttgccg cccctcccgc
      121 agtcccgcgg ctttcgaggg agcgctgcgg ggactcggga ccgccgggga aacctgtgac
      181 cccgcgcagg agcggcgggg cgggggaccg ggagaagatg gcgacgccgg gaagcgaacc
      241 ccaagctttc gcgcccgctc tctcggtaac cgccctgcac ccgcatctcc accagcacca
      301 ccaacaccac caacaccacc agcaccacgg aggcaccggc ggcaccggct tcaacctgcc
      361 cttgaaccgt ggtttggagc gcgcgctgga ggaggcggcc aactctgggg gcttgaacct
      421 gagcgccagg aagctgaagg agtttcccag gactacggcc ccgggacatg acctctcgga
      481 cacggttcgg gcagatctat ctaaaaacag actggtggaa gtgccaatgg agctgtgcca
      541 atttgtatca ctggaaattc ttaacctgta tcacaactgt atcagagtca ttcctgaggc
      601 cattgttaat ttgcagatgt tgacccacct aaacttgagt cgaaatcagc tgtctgccct
      661 gcccgcctgc ctgtgtggtc tgcctctcaa agtcttaatc gcaagcaaca acaagctcgg
      721 atcactgcct gaagagatag gtcagctcaa acagttaatg gagttggatg tgagttgcaa
      781 cgagatcacg gccttgcccc agcagatagg ccagctgaag tctctgcggg aactcaatgt
      841 ccgaagaaat taccttaagg ttttaccacc agagctagta gatctcccct tggtaaagtt
      901 tgacttttcc tgcaacaagg tgctggtgat ccccgtctgc ttcagggaga tgaagcagct
      961 gcaggtgctc ctgcttgaga acaaccctct gcagtcccct ccggcgcaga tttgcacgaa
     1021 aggaaaagta cacatattta agtatttgag catacaagca tgccagatta agacaagtga
     1081 ctctctttac ctccccacca tagagaggcc ccatttacac caacacgtgg aagacagtaa
     1141 gaaggactcc gactcagggg ttggaagtga caatggagat aagcggttat ctgccaccga
     1201 gccctctgat gaggacacgg ttagcctcaa tgcgcccatg tcaaacatcg tggaagaaga
     1261 ccagaccatc aaggaggatg cgtgccatcg gctcacccca actaaaggag aatttcagcc
     1321 gaagccttcc attttggggg acagcggcat ctcaggacaa gaaagagagc agcttgctgg
     1381 ccgtgcagat gctcgacact cgggacttat gaactatatt aaggaccagg cagaagactg
     1441 tgaagagcta ttgcggatag aagaggatgc tcactggcac atggaggaac tactaaattc
     1501 atccaaagac cgggagctgg atatagcgat gattgagcag ctgagagagg cagagctgct
     1561 tcaggatccc aacggtctaa gcgcagatat catagagaga agtattttga acctgttccc
     1621 catggactca ggagaagcct cagaattccc tgatccttca ctcaatggcc agttgcagct
     1681 ggagacgtct ccagaccgtg aggtgcaaaa tgatctaatg ttacagagta atggaagcca
     1741 gtattctccc aatgagatac gagagaactc cccttcagtg tctcctactg caaacatcac
     1801 agctccgttt ggcctgaagc ctcgttcagt gtttctaaga ccgcagagaa acttggaatc
     1861 tatagaccca cagtttacga tccggaggaa gatggagcag atgagagagg agaaggagct
     1921 ggtggagcaa ctccgagaga gcatcgagat gaggctgaag gtgacccttc atgaagacct
     1981 gggggcggca ctcatggatg gtgtcgtcct ctgccacctg gccaaccacg tccgtccgag
     2041 atctgtcgcc agcatccatg tcccctcacc ggctgttcct aaactcagca tggccaagtg
     2101 caggaggaac gtggaaaact tcttggaagc gtgcaggaaa cttggcgttc ccgaggaaaa
     2161 gctctgcctg cctcatcaca tccttgaaga gaaaggcctg gtcaaagtgg gcacgactgt
     2221 tcaggcactg ttggatgtca ccgtcacaaa agctctattc acatgagacc aagccctttc
     2281 ctctgggtgg gctcagcctc ttcccagagc agggactctg gactctgctc ctggcacctg
     2341 tacctgctcc ccaactcacc tccctgccag gtcccggagg aggaactgca ctggcgtggt
     2401 ttcagcctaa gggaggactc aggacctttt agagttggcc tgcaggtttc aggttgggca
     2461 ggtgttacct gacagcgggt cagggagctg gcggagaact gagtagcagc acatcattgc
     2521 ctttcaatcc ccttcatccc ttccacactc accaaccgcc attaccaaat gccaagcaca
     2581 accatttcac agtgagtcgc gtgcgtctgt tttatcaaaa ccaaactcct tgcagaacca
     2641 gtagggggag ggggatgcaa tcaggtttct tttttttgcc accaaaattt ttcaagatgt
     2701 ttcttgagac cattgccttt ctgaaaaact attttcaaca tacaaaaata tttatataaa
     2761 tgttatttat tagcgagcca ttattcatcc tttggatgca aattgtaaat taggaaacta
     2821 ttttattact gcttttttgt ggttaaacaa tttattttaa tattataaat actgagttat
     2881 tttttgagcc tctttggcat gtaggagttc cgggtcttgg tgtgcattct gtagtatata
     2941 tgattcagga aagaaaaatt aagcaagaaa cacgtgcttc ttctgtggca gacagagaga
     3001 gctgttttct gagaggtgtt atccaccttt tggtttgtgg aacatcgttc ttatttatat
     3061 ttctgcattc catccagttt cctacattcc agcagccctc ttgtccccca atataataaa
     3121 ctgactgaaa tcaagagagc accccaaagt tatttgtaaa tagttaatgt ggaaaaaaaa
     3181 agacatatta aacttgaaga taaaatgtga agtttttttt tttctggatt catgtttctt
     3241 tcgctatgca caaaacattc acattttaac acagagaagt gggaagtgtt cagatatgtc
     3301 ttgaagtata atttttgcac tgtactttat gtcattgagg agcatctagg accagaggta
     3361 gatgttgaag aaagggatga aaacatggag caggttgaag ttgaccatca agctacaagg
     3421 gccgtaagag ctcaagtcag gaagccaaca tggacgtaca actgctggtg ttcaaagaac
     3481 aagagatgcc aaaatgtaga catactcgtt tttattatta tcaagctggt gaattttttt
     3541 aagagtctgg acttggaagg gtcatggtgt ctggtaggaa acttgggaag tgtgcagctc
     3601 acagggcagg gcccctggtg ggcagctatg tgcacagcga ggcagactga gagagggtta
     3661 agtaagtgga gtgtgttagc agctagtagg gggcaggggc aagcacatta ggactagcag
     3721 ggagccaggc caagaaagga gcacacccca tcctgtcagt gggtgagctt ccttcaagga
     3781 aggcttcata ggactatgca ggggcagtca cacccacaca cactcaccct gtaggtgtgg
     3841 gcagataacc cagtcattca tctgtcaagt ttgggaatgc tgactgcact ttgacccctg
     3901 tacaaagcca ttagcagttt tctagagcat cagttgccac gatggggggg accatcaaga
     3961 tggatacaaa agaccacagg agggatgagt gtggtccaca cacaccgaca gacactgcct
     4021 cagggcatgg cagatgggtt ctgagtgtgg gacttcagat tggcagctag tgatacttcc
     4081 tatcatgtgt actgtgcact ttaacataaa tatatttgaa tatttttctg tactgcacaa
     4141 atgcctgttt tgtcagatgg catagcagtg taaagatgag agggttttta acagagtata
     4201 ttcagcagaa gcagaagtca gaggttatct acacaaggat ttagagtgat ggtctagaat
     4261 gttgtacctt cagggctttg caccccagag tcctgaagta tatttttaca tgtatctttg
     4321 acaacatgaa gctcagtaac cattattttt ggatattttt tcaaaattaa agtatttctt
     4381 ttgatattaa tttccagtat tttcatgaaa ttggctgtat catacaaacg gcttcaatat
     4441 tttgtaaaat gtttttttat gcagatctta tatggataag atgtcttcaa gatccctgta
     4501 cactatgtct atatgtgcaa tgaaatgtgc atggctggct ggtagtatga taagtagaca
     4561 gaatgtatat aatgcaaacc cttttattat ttaacagcca ttaaaatttt aaacttgtac
     4621 caaccaaaaa aaaaaaaaaa aaaaaa
//
