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Lmo1 LIM domain only 1 [ Mus musculus (house mouse) ]

Gene ID: 109594, updated on 8-Dec-2018

Summary

Official Symbol
Lmo1provided by MGI
Official Full Name
LIM domain only 1provided by MGI
Primary source
MGI:MGI:102812
See related
Ensembl:ENSMUSG00000036111
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
Ttg1; Rbtn1; Rbtn-1
Expression
Broad expression in bladder adult (RPKM 28.1), whole brain E14.5 (RPKM 23.1) and 16 other tissues See more
Orthologs

Genomic context

See Lmo1 in Genome Data Viewer
Location:
7 E3; 7 57.21 cM
Exon count:
5
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 7 NC_000073.6 (109138565..109175341, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 7 NC_000073.5 (116282086..116313822, complement)

Chromosome 7 - NC_000073.6Genomic Context describing neighboring genes Neighboring gene predicted gene, 32309 Neighboring gene tubby bipartite transcription factor Neighboring gene RIC3 acetylcholine receptor chaperone Neighboring gene predicted gene 44781 Neighboring gene predicted gene, 32563 Neighboring gene serine/threonine kinase 33 Neighboring gene peptidylprolyl isomerase (cyclophilin)-like 2 pseudogene

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)

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 
Component Evidence Code Pubs
NOT nucleolus IDA
Inferred from Direct Assay
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
rhombotin-1
Names
LIM domain only protein 1
LIM only 1
LMO-1
T-cell translocation protein 1
cysteine-rich protein TTG-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_001302205.1NP_001289134.1  rhombotin-1 isoform 2

    See identical proteins and their annotated locations for NP_001289134.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an upstream alternate 5'-terminal exon which reflects use of an alternate promoter supported by epigenetic data, compared to variant 1. The encoded isoform (2) is shorter and has a distinct N-terminus compared to isoform 1.
    Source sequence(s)
    AV250089, AW494084, BC053074
    Consensus CDS
    CCDS85378.1
    UniProtKB/Swiss-Prot
    Q924W9
    UniProtKB/TrEMBL
    A0A140LIB4
    Related
    ENSMUSP00000146752.1, ENSMUST00000207178.1
    Conserved Domains (2) summary
    cd09388
    Location:2377
    LIM1_LMO1_LMO3; The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
    cd09389
    Location:87141
    LIM2_LMO1_LMO3; The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
  2. NM_001302206.1NP_001289135.1  rhombotin-1 isoform 3

    See identical proteins and their annotated locations for NP_001289135.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site in the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. The resulting isoform (3) is shorter at the N-terminus compared to isoform 1.
    Source sequence(s)
    AA050915, AC147221, AV250089, BC053074
    Consensus CDS
    CCDS85377.1
    UniProtKB/Swiss-Prot
    Q924W9
    UniProtKB/TrEMBL
    A0A140LHX4
    Related
    ENSMUSP00000146588.1, ENSMUST00000208136.1
    Conserved Domains (2) summary
    cd09388
    Location:1367
    LIM1_LMO1_LMO3; The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
    cd09389
    Location:77131
    LIM2_LMO1_LMO3; The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
  3. NM_057173.3NP_476514.1  rhombotin-1 isoform 1

    See identical proteins and their annotated locations for NP_476514.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1)
    Source sequence(s)
    AV250089, BC053074, DV662082
    Consensus CDS
    CCDS40080.1
    UniProtKB/Swiss-Prot
    Q924W9
    UniProtKB/TrEMBL
    Q3UZX1
    Related
    ENSMUSP00000037079.7, ENSMUST00000036992.8
    Conserved Domains (2) summary
    cd09388
    Location:2478
    LIM1_LMO1_LMO3; The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
    cd09389
    Location:88142
    LIM2_LMO1_LMO3; The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)

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_000073.6 Reference GRCm38.p4 C57BL/6J

    Range
    109138565..109175341 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006507195.3XP_006507258.1  rhombotin-1 isoform X1

    See identical proteins and their annotated locations for XP_006507258.1

    UniProtKB/Swiss-Prot
    Q924W9
    UniProtKB/TrEMBL
    Q3UZX1
    Conserved Domains (2) summary
    cd09388
    Location:2478
    LIM1_LMO1_LMO3; The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
    cd09389
    Location:88142
    LIM2_LMO1_LMO3; The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
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