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    Lins1 lines homolog 1 [ Mus musculus (house mouse) ]

    Gene ID: 72635, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Lins1provided by MGI
    Official Full Name
    lines homolog 1provided by MGI
    Primary source
    MGI:MGI:1919885
    See related
    Ensembl:ENSMUSG00000053091 AllianceGenome:MGI:1919885
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Lins; Lins2; Wins2; 2700083B01Rik
    Summary
    Predicted to be involved in cognition. Human ortholog(s) of this gene implicated in autosomal recessive intellectual developmental disorder 27. Orthologous to human LINS1 (lines homolog 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in limb E14.5 (RPKM 3.6), CNS E14 (RPKM 3.3) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Lins1 in Genome Data Viewer
    Location:
    7 C; 7 36.08 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (66339565..66367004)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (66689817..66717256)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_19085 Neighboring gene STARR-seq mESC enhancer starr_19088 Neighboring gene predicted gene, 53392 Neighboring gene predicted gene, 33570 Neighboring gene STARR-seq mESC enhancer starr_19090 Neighboring gene STARR-positive B cell enhancer ABC_E11356 Neighboring gene STARR-positive B cell enhancer ABC_E1735 Neighboring gene ankyrin repeat and SOCS box-containing 7 Neighboring gene STARR-seq mESC enhancer starr_19091 Neighboring gene ceramide synthase 3 Neighboring gene predicted gene, 33627 Neighboring gene ADAM metallopeptidase with thrombospondin type 1 motif 17

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Molecular cloning and characterization of human WINS1 and mouse Wins2, homologous to Drosophila segment polarity gene Lines (Lin). Katoh M. Int J Mol Med, 2002 Aug. PMID 12119551
    2. Characterization of gene expression in mouse blastocyst using single-pass sequencing of 3995 clones. Sasaki N, et al. Genomics, 1998 Apr 15. PMID 9598303
    3. Database resources of the National Center for Biotechnology Information. Wheeler DL, et al. Nucleic Acids Res, 2001 Jan 1. PMID 11125038, Free PMC Article
    4. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article
    5. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in cognition IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cognition ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    General protein information

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    Preferred Names
    protein Lines homolog 1
    Names
    Wins2 protein with Drosophila Lin homologous domain
    lines homolog 2
    protein Lines homolog 2
    protein with Drosophila Lines homologous domain
    wnt-signaling molecule Lines homolog 1
    wnt-signaling molecule Lines homolog 2

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001191001.1 → NP_001177930.1  protein Lines homolog 1 isoform 2

      See identical proteins and their annotated locations for NP_001177930.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. The resulting protein (isoform 2) is shorter than isoform 1.
      Source sequence(s)
      AC120791
      Consensus CDS
      CCDS57555.1
      UniProtKB/Swiss-Prot
      Q3U1D0
      Related
      ENSMUSP00000077117.7, ENSMUST00000077967.13
      Conserved Domains (2) summary
      pfam14694
      Location:205 → 553
      LINES_N; Lines N-terminus
      pfam14695
      Location:718 → 754
      LINES_C; Lines C-terminus

    2. NM_152815.2 → NP_690028.2  protein Lines homolog 1 isoform 1

      See identical proteins and their annotated locations for NP_690028.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AC120791
      Consensus CDS
      CCDS21348.2
      UniProtKB/Swiss-Prot
      Q3TBL8, Q3U1D0, Q6PCP6, Q8K4P9
      Related
      ENSMUSP00000112404.3, ENSMUST00000121777.9
      Conserved Domains (2) summary
      pfam14694
      Location:211 → 558
      LINES_N; Lines N-terminus
      pfam14695
      Location:723 → 758
      LINES_C; Lines C-terminus

    RNA

    1. NR_034030.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses alternate splice sites in two internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC120791, BC058648
      Related
      ENSMUST00000130161.9

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000073.7 Reference GRCm39 C57BL/6J

      Range
      66339565..66367004
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006541219.4 → XP_006541282.1  protein Lines homolog 1 isoform X2

      Conserved Domains (2) summary
      pfam14694
      Location:175 → 523
      LINES_N; Lines N-terminus
      pfam14695
      Location:688 → 724
      LINES_C; Lines C-terminus

    2. XM_006541218.5 → XP_006541281.1  protein Lines homolog 1 isoform X1

      See identical proteins and their annotated locations for XP_006541281.1

      UniProtKB/Swiss-Prot
      Q3U1D0
      Conserved Domains (2) summary
      pfam14694
      Location:205 → 553
      LINES_N; Lines N-terminus
      pfam14695
      Location:718 → 754
      LINES_C; Lines C-terminus

    3. XM_036153460.1 → XP_036009353.1  protein Lines homolog 1 isoform X6

      Conserved Domains (2) summary
      pfam14694
      Location:1 → 292
      LINES_N; Lines N-terminus
      pfam14695
      Location:457 → 493
      LINES_C; Lines C-terminus

    4. XM_030243014.1 → XP_030098874.1  protein Lines homolog 1 isoform X6

      Conserved Domains (2) summary
      pfam14694
      Location:1 → 292
      LINES_N; Lines N-terminus
      pfam14695
      Location:457 → 493
      LINES_C; Lines C-terminus

    5. XM_006541217.5 → XP_006541280.1  protein Lines homolog 1 isoform X1

      See identical proteins and their annotated locations for XP_006541280.1

      UniProtKB/Swiss-Prot
      Q3U1D0
      Conserved Domains (2) summary
      pfam14694
      Location:205 → 553
      LINES_N; Lines N-terminus
      pfam14695
      Location:718 → 754
      LINES_C; Lines C-terminus

    6. XM_030243012.2 → XP_030098872.1  protein Lines homolog 1 isoform X4

      Conserved Domains (2) summary
      pfam14694
      Location:144 → 492
      LINES_N; Lines N-terminus
      pfam14695
      Location:657 → 693
      LINES_C; Lines C-terminus

    7. XM_006541220.5 → XP_006541283.1  protein Lines homolog 1 isoform X3

      Conserved Domains (2) summary
      pfam14694
      Location:174 → 522
      LINES_N; Lines N-terminus
      pfam14695
      Location:687 → 723
      LINES_C; Lines C-terminus

    8. XM_011250905.4 → XP_011249207.1  protein Lines homolog 1 isoform X6

      See identical proteins and their annotated locations for XP_011249207.1

      UniProtKB/Swiss-Prot
      Q3U1D0
      Conserved Domains (2) summary
      pfam14694
      Location:1 → 292
      LINES_N; Lines N-terminus
      pfam14695
      Location:457 → 493
      LINES_C; Lines C-terminus

    9. XM_036153457.1 → XP_036009350.1  protein Lines homolog 1 isoform X4

      Conserved Domains (2) summary
      pfam14694
      Location:144 → 492
      LINES_N; Lines N-terminus
      pfam14695
      Location:657 → 693
      LINES_C; Lines C-terminus

    10. XM_036153458.1 → XP_036009351.1  protein Lines homolog 1 isoform X5

      Conserved Domains (2) summary
      pfam14694
      Location:146 → 452
      LINES_N; Lines N-terminus
      pfam14695
      Location:617 → 653
      LINES_C; Lines C-terminus

    11. XM_036153459.1 → XP_036009352.1  protein Lines homolog 1 isoform X6

      Conserved Domains (2) summary
      pfam14694
      Location:1 → 292
      LINES_N; Lines N-terminus
      pfam14695
      Location:457 → 493
      LINES_C; Lines C-terminus

    12. XM_017312329.1 → XP_017167818.1  protein Lines homolog 1 isoform X6

      UniProtKB/Swiss-Prot
      Q3U1D0
      Conserved Domains (2) summary
      pfam14694
      Location:1 → 292
      LINES_N; Lines N-terminus
      pfam14695
      Location:457 → 493
      LINES_C; Lines C-terminus

    13. XM_036153461.1 → XP_036009354.1  protein Lines homolog 1 isoform X6

      Conserved Domains (2) summary
      pfam14694
      Location:1 → 292
      LINES_N; Lines N-terminus
      pfam14695
      Location:457 → 493
      LINES_C; Lines C-terminus
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q3U1D0.2 GenPept UniProtKB/Swiss-Prot:Q3U1D0

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