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Lmo2 LIM domain only 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 362176, updated on 12-Aug-2018

Summary

Official Symbol
Lmo2provided by RGD
Official Full Name
LIM domain only 2provided by RGD
Primary source
RGD:1307101
See related
Ensembl:ENSRNOG00000009401
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Expression
Biased expression in Spleen (RPKM 277.0), Lung (RPKM 169.0) and 9 other tissues See more
Orthologs

Genomic context

See Lmo2 in Genome Data Viewer
Location:
3q32
Exon count:
6
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (93909156..93931888)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 3 NC_005102.3 (100549307..100572039)

Chromosome 3 - NC_005102.4Genomic Context describing neighboring genes Neighboring gene cell cycle associated protein 1 Neighboring gene uncharacterized LOC108350425 Neighboring gene uncharacterized LOC102551977 Neighboring gene uncharacterized LOC102552075 Neighboring gene uncharacterized LOC108350426 Neighboring gene F-box protein 3 Neighboring gene CD59 molecule

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Pathways from BioSystems

General gene information

Markers

Homology

Clone Names

  • MGC124678

Gene Ontology Provided by RGD

Function Evidence Code Pubs
contributes_to DNA binding ISO
Inferred from Sequence Orthology
more info
 
DNA-binding transcription activator activity, RNA polymerase II-specific IEA
Inferred from Electronic Annotation
more info
 
DNA-binding transcription activator activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
 
DNA-binding transcription factor activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
 
E-box binding IEA
Inferred from Electronic Annotation
more info
 
E-box binding ISO
Inferred from Sequence Orthology
more info
 
RNA polymerase II activating transcription factor binding IEA
Inferred from Electronic Annotation
more info
 
RNA polymerase II activating transcription factor binding ISO
Inferred from Sequence Orthology
more info
 
RNA polymerase II regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
bHLH transcription factor binding IEA
Inferred from Electronic Annotation
more info
 
bHLH transcription factor binding ISO
Inferred from Sequence Orthology
more info
 
chromatin binding ISO
Inferred from Sequence Orthology
more info
 
cofactor binding IEA
Inferred from Electronic Annotation
more info
 
cofactor binding ISO
Inferred from Sequence Orthology
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
molecular_function ND
No biological Data available
more info
 
Process Evidence Code Pubs
biological_process ND
No biological Data available
more info
 
cellular response to thyroid hormone stimulus IEA
Inferred from Electronic Annotation
more info
 
cellular response to thyroid hormone stimulus ISO
Inferred from Sequence Orthology
more info
 
embryonic hemopoiesis ISO
Inferred from Sequence Orthology
more info
 
mRNA transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
mRNA transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
negative regulation of erythrocyte differentiation ISO
Inferred from Sequence Orthology
more info
 
positive regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
cellular_component ND
No biological Data available
more info
 
nucleus ISO
Inferred from Sequence Orthology
more info
 
protein-containing complex ISO
Inferred from Sequence Orthology
more info
 
transcription factor complex IEA
Inferred from Electronic Annotation
more info
 
transcription factor complex ISO
Inferred from Sequence Orthology
more info
 

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_001037358.2NP_001032435.2  rhombotin-2 isoform 1

    See identical proteins and their annotated locations for NP_001032435.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    BC105772
    UniProtKB/TrEMBL
    A0A0G2QC60, Q3KRD2
    Related
    ENSRNOP00000012625.7, ENSRNOT00000012625.6
    Conserved Domains (2) summary
    cd09384
    Location:92147
    LIM1_LMO2; The first LIM domain of LMO2 (LIM domain only protein 2)
    cd09385
    Location:156211
    LIM2_LMO2; The second LIM domain of LMO2 (LIM domain only protein 2)
  2. NM_001244779.1NP_001231708.1  rhombotin-2 isoform 2

    See identical proteins and their annotated locations for NP_001231708.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has an alternate 5' exon, which results in a downstream AUG start codon, compared to variant 1. The resulting isoform (2) is shorter at the N-terminus than isoform 1.
    Source sequence(s)
    BC105772, DY319476
    UniProtKB/TrEMBL
    Q3KRD2
    Related
    ENSRNOP00000072744.1, ENSRNOT00000090365.1
    Conserved Domains (2) summary
    cd09384
    Location:3085
    LIM1_LMO2; The first LIM domain of LMO2 (LIM domain only protein 2)
    cd09385
    Location:94149
    LIM2_LMO2; The second LIM domain of LMO2 (LIM domain only protein 2)
  3. NM_001244780.1NP_001231709.1  rhombotin-2 isoform 2

    See identical proteins and their annotated locations for NP_001231709.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) has an alternate 5' exon, which results in a downstream AUG start codon, compared to variant 1. The resulting isoform (2) is shorter at the N-terminus than isoform 1.
    Source sequence(s)
    BC105772, CO559731
    UniProtKB/TrEMBL
    Q3KRD2
    Related
    ENSRNOP00000075577.1, ENSRNOT00000083527.1
    Conserved Domains (2) summary
    cd09384
    Location:3085
    LIM1_LMO2; The first LIM domain of LMO2 (LIM domain only protein 2)
    cd09385
    Location:94149
    LIM2_LMO2; The second LIM domain of LMO2 (LIM domain only protein 2)
  4. NM_001244781.1NP_001231710.1  rhombotin-2 isoform 2

    See identical proteins and their annotated locations for NP_001231710.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks a segment in the 5' region, which results in a downstream AUG start codon, compared to variant 1. The resulting isoform (2) is shorter at the N-terminus than isoform 1.
    Source sequence(s)
    BC105772, CK476274
    UniProtKB/TrEMBL
    Q3KRD2
    Conserved Domains (2) summary
    cd09384
    Location:3085
    LIM1_LMO2; The first LIM domain of LMO2 (LIM domain only protein 2)
    cd09385
    Location:94149
    LIM2_LMO2; The second LIM domain of LMO2 (LIM domain only protein 2)

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005102.4 Reference Rnor_6.0 Primary Assembly

    Range
    93909156..93931888
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Rn_Celera

Genomic

  1. AC_000071.1 Alternate Rn_Celera

    Range
    89416677..89439412
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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