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Lims1 LIM and senescent cell antigen-like domains 1 [ Mus musculus (house mouse) ]

Gene ID: 110829, updated on 7-Aug-2018

Summary

Official Symbol
Lims1provided by MGI
Official Full Name
LIM and senescent cell antigen-like domains 1provided by MGI
Primary source
MGI:MGI:1195263
See related
Ensembl:ENSMUSG00000019920 Vega:OTTMUSG00000024823
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
PINCH; Lims1l; PINCH1; AI507642; AU021743; AW551584; 2310016J22Rik; 4921524A02Rik; C430041B13Rik
Expression
Ubiquitous expression in bladder adult (RPKM 9.3), liver E14 (RPKM 7.2) and 26 other tissues See more
Orthologs

Genomic context

See Lims1 in Genome Data Viewer
Location:
10 B4; 10 29.31 cM
Exon count:
15
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 10 NC_000076.6 (58323434..58424691)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 10 NC_000076.5 (57786295..57887437)

Chromosome 10 - NC_000076.6Genomic Context describing neighboring genes Neighboring gene GRIP and coiled-coil domain containing 2 Neighboring gene predicted gene, 40668 Neighboring gene RAN binding protein 2 Neighboring gene coiled-coil domain containing 138 Neighboring gene predicted gene, 18042

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein kinase binding ISO
Inferred from Sequence Orthology
more info
 
zinc ion binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
cell-cell adhesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
cell-cell junction organization IGI
Inferred from Genetic Interaction
more info
PubMed 
cell-matrix adhesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
chordate embryonic development IMP
Inferred from Mutant Phenotype
more info
PubMed 
establishment of protein localization ISO
Inferred from Sequence Orthology
more info
 
establishment or maintenance of cell polarity IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of apoptotic process IGI
Inferred from Genetic Interaction
more info
PubMed 
negative regulation of epithelial cell proliferation IGI
Inferred from Genetic Interaction
more info
PubMed 
negative regulation of hepatocyte proliferation IGI
Inferred from Genetic Interaction
more info
PubMed 
negative regulation of neural precursor cell proliferation IGI
Inferred from Genetic Interaction
more info
PubMed 
negative regulation of transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
 
positive regulation of GTPase activity ISO
Inferred from Sequence Orthology
more info
 
positive regulation of NIK/NF-kappaB signaling ISO
Inferred from Sequence Orthology
more info
 
positive regulation of cell-substrate adhesion ISO
Inferred from Sequence Orthology
more info
 
positive regulation of focal adhesion assembly ISO
Inferred from Sequence Orthology
more info
 
positive regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
positive regulation of integrin-mediated signaling pathway IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of substrate adhesion-dependent cell spreading ISO
Inferred from Sequence Orthology
more info
 
protein heterooligomerization ISO
Inferred from Sequence Orthology
more info
 
tumor necrosis factor-mediated signaling pathway ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
cell junction IEA
Inferred from Electronic Annotation
more info
 
cell-cell junction ISO
Inferred from Sequence Orthology
more info
 
focal adhesion IDA
Inferred from Direct Assay
more info
PubMed 
focal adhesion ISO
Inferred from Sequence Orthology
more info
 
colocalizes_with focal adhesion ISO
Inferred from Sequence Orthology
more info
 
membrane IEA
Inferred from Electronic Annotation
more info
 
perinuclear region of cytoplasm ISO
Inferred from Sequence Orthology
more info
 
plasma membrane IEA
Inferred from Electronic Annotation
more info
 
protein-containing complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
LIM and senescent cell antigen-like-containing domain protein 1
Names
particularly interesting new Cys-His protein 1

NCBI Reference Sequences (RefSeq)

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_001193303.1NP_001180232.1  LIM and senescent cell antigen-like-containing domain protein 1 isoform 3

    See identical proteins and their annotated locations for NP_001180232.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) has multiple differences, compared to variant 1. It encodes isoform 3, which is longer and has distinct N- and C-termini, compared to isoform 1.
    Source sequence(s)
    AC155323, AK009390
    Consensus CDS
    CCDS56703.1
    UniProtKB/TrEMBL
    Q9D7B2
    Related
    ENSMUSP00000020077.3, OTTMUSP00000029920, ENSMUST00000020077.10, OTTMUST00000061127
    Conserved Domains (5) summary
    cd09331
    Location:72130
    LIM1_PINCH; The first LIM domain of protein PINCH
    cd09332
    Location:133184
    LIM2_PINCH; The second LIM domain of protein PINCH
    cd09333
    Location:197247
    LIM3_PINCH; The third LIM domain of protein PINCH
    cd09334
    Location:253306
    LIM4_PINCH; The fourth LIM domain of protein PINCH
    cd09335
    Location:314367
    LIM5_PINCH; The fifth LIM domain of protein PINCH
  2. NM_001346676.1NP_001333605.1  LIM and senescent cell antigen-like-containing domain protein 1 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC155323, BQ554039, CN525761
    Consensus CDS
    CCDS83697.1
    UniProtKB/TrEMBL
    E9QP62
    Conserved Domains (5) summary
    cd09331
    Location:72130
    LIM1_PINCH; The first LIM domain of protein PINCH
    cd09332
    Location:133184
    LIM2_PINCH; The second LIM domain of protein PINCH
    cd09333
    Location:197247
    LIM3_PINCH; The third LIM domain of protein PINCH
    cd09334
    Location:253306
    LIM4_PINCH; The fourth LIM domain of protein PINCH
    cd09335
    Location:314367
    LIM5_PINCH; The fifth LIM domain of protein PINCH
  3. NM_001359115.1NP_001346044.1  LIM and senescent cell antigen-like-containing domain protein 1 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AA989985, AC155323, AW493431, BY714471, CN461732
    Conserved Domains (5) summary
    cd09331
    Location:2280
    LIM1_PINCH; The first LIM domain of protein PINCH
    cd09332
    Location:83134
    LIM2_PINCH; The second LIM domain of protein PINCH
    cd09333
    Location:147197
    LIM3_PINCH; The third LIM domain of protein PINCH
    cd09334
    Location:203256
    LIM4_PINCH; The fourth LIM domain of protein PINCH
    cd09335
    Location:264317
    LIM5_PINCH; The fifth LIM domain of protein PINCH
  4. NM_001359116.1NP_001346045.1  LIM and senescent cell antigen-like-containing domain protein 1 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC155323, AK152679, BY210263
    Conserved Domains (5) summary
    cd09331
    Location:1068
    LIM1_PINCH; The first LIM domain of protein PINCH
    cd09332
    Location:71122
    LIM2_PINCH; The second LIM domain of protein PINCH
    cd09333
    Location:135185
    LIM3_PINCH; The third LIM domain of protein PINCH
    cd09334
    Location:191244
    LIM4_PINCH; The fourth LIM domain of protein PINCH
    cd09335
    Location:252305
    LIM5_PINCH; The fifth LIM domain of protein PINCH
  5. NM_026148.4NP_080424.2  LIM and senescent cell antigen-like-containing domain protein 1 isoform 1

    See identical proteins and their annotated locations for NP_080424.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes isoform 1.
    Source sequence(s)
    AC155323, AK152679, BY714471
    Consensus CDS
    CCDS23860.1
    UniProtKB/Swiss-Prot
    Q99JW4
    UniProtKB/TrEMBL
    A0A0R4J005
    Related
    ENSMUSP00000020078.6, OTTMUSP00000029919, ENSMUST00000020078.13
    Conserved Domains (5) summary
    cd09331
    Location:2280
    LIM1_PINCH; The first LIM domain of protein PINCH
    cd09332
    Location:83134
    LIM2_PINCH; The second LIM domain of protein PINCH
    cd09333
    Location:147197
    LIM3_PINCH; The third LIM domain of protein PINCH
    cd09334
    Location:203256
    LIM4_PINCH; The fourth LIM domain of protein PINCH
    cd09335
    Location:264317
    LIM5_PINCH; The fifth LIM domain of protein PINCH
  6. NM_201242.1NP_957694.1  LIM and senescent cell antigen-like-containing domain protein 1 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate exon in the 5' UTR and 5' coding region, compared to variant 1. It encodes isoform 2, which is longer and has a distinct N-terminus, compared to isoform 1.
    Source sequence(s)
    AC155323
    Conserved Domains (5) summary
    cd09331
    Location:47105
    LIM1_PINCH; The first LIM domain of protein PINCH
    cd09332
    Location:108159
    LIM2_PINCH; The second LIM domain of protein PINCH
    cd09333
    Location:172222
    LIM3_PINCH; The third LIM domain of protein PINCH
    cd09334
    Location:228281
    LIM4_PINCH; The fourth LIM domain of protein PINCH
    cd09335
    Location:289342
    LIM5_PINCH; The fifth LIM domain of protein PINCH

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000076.6 Reference GRCm38.p4 C57BL/6J

    Range
    58323434..58424691
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006513071.2XP_006513134.1  LIM and senescent cell antigen-like-containing domain protein 1 isoform X4

    Conserved Domains (5) summary
    cd09331
    Location:2280
    LIM1_PINCH; The first LIM domain of protein PINCH
    cd09332
    Location:83134
    LIM2_PINCH; The second LIM domain of protein PINCH
    cd09333
    Location:147197
    LIM3_PINCH; The third LIM domain of protein PINCH
    cd09334
    Location:203256
    LIM4_PINCH; The fourth LIM domain of protein PINCH
    cd09335
    Location:264317
    LIM5_PINCH; The fifth LIM domain of protein PINCH
  2. XM_006513072.2XP_006513135.1  LIM and senescent cell antigen-like-containing domain protein 1 isoform X5

    Conserved Domains (5) summary
    cd09331
    Location:1068
    LIM1_PINCH; The first LIM domain of protein PINCH
    cd09332
    Location:71122
    LIM2_PINCH; The second LIM domain of protein PINCH
    cd09333
    Location:135185
    LIM3_PINCH; The third LIM domain of protein PINCH
    cd09334
    Location:191244
    LIM4_PINCH; The fourth LIM domain of protein PINCH
    cd09335
    Location:252305
    LIM5_PINCH; The fifth LIM domain of protein PINCH
  3. XM_006513073.2XP_006513136.1  LIM and senescent cell antigen-like-containing domain protein 1 isoform X6

    UniProtKB/Swiss-Prot
    Q99JW4
    Conserved Domains (5) summary
    cd09331
    Location:1068
    LIM1_PINCH; The first LIM domain of protein PINCH
    cd09332
    Location:71122
    LIM2_PINCH; The second LIM domain of protein PINCH
    cd09333
    Location:135185
    LIM3_PINCH; The third LIM domain of protein PINCH
    cd09334
    Location:191244
    LIM4_PINCH; The fourth LIM domain of protein PINCH
    cd09335
    Location:252305
    LIM5_PINCH; The fifth LIM domain of protein PINCH
  4. XM_006513070.3XP_006513133.1  LIM and senescent cell antigen-like-containing domain protein 1 isoform X3

    Conserved Domains (5) summary
    cd09331
    Location:47105
    LIM1_PINCH; The first LIM domain of protein PINCH
    cd09332
    Location:108159
    LIM2_PINCH; The second LIM domain of protein PINCH
    cd09333
    Location:172222
    LIM3_PINCH; The third LIM domain of protein PINCH
    cd09334
    Location:228281
    LIM4_PINCH; The fourth LIM domain of protein PINCH
    cd09335
    Location:289342
    LIM5_PINCH; The fifth LIM domain of protein PINCH
  5. XM_006513074.3XP_006513137.1  LIM and senescent cell antigen-like-containing domain protein 1 isoform X7

    Conserved Domains (1) summary
    cd09331
    Location:72114
    LIM1_PINCH; The first LIM domain of protein PINCH
  6. XM_006513068.3XP_006513131.1  LIM and senescent cell antigen-like-containing domain protein 1 isoform X1

    Conserved Domains (5) summary
    cd09331
    Location:72130
    LIM1_PINCH; The first LIM domain of protein PINCH
    cd09332
    Location:133184
    LIM2_PINCH; The second LIM domain of protein PINCH
    cd09333
    Location:197247
    LIM3_PINCH; The third LIM domain of protein PINCH
    cd09334
    Location:253306
    LIM4_PINCH; The fourth LIM domain of protein PINCH
    cd09335
    Location:314367
    LIM5_PINCH; The fifth LIM domain of protein PINCH
  7. XM_006513069.3XP_006513132.1  LIM and senescent cell antigen-like-containing domain protein 1 isoform X2

    Related
    ENSMUSP00000101108.1, OTTMUSP00000029921, ENSMUST00000105468.1, OTTMUST00000061128
    Conserved Domains (5) summary
    cd09331
    Location:72130
    LIM1_PINCH; The first LIM domain of protein PINCH
    cd09332
    Location:133184
    LIM2_PINCH; The second LIM domain of protein PINCH
    cd09333
    Location:197247
    LIM3_PINCH; The third LIM domain of protein PINCH
    cd09334
    Location:253306
    LIM4_PINCH; The fourth LIM domain of protein PINCH
    cd09335
    Location:314367
    LIM5_PINCH; The fifth LIM domain of protein PINCH
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