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Pdlim7 PDZ and LIM domain 7 [ Mus musculus (house mouse) ]

Gene ID: 67399, updated on 23-Jun-2021

Summary

Official Symbol
Pdlim7provided by MGI
Official Full Name
PDZ and LIM domain 7provided by MGI
Primary source
MGI:MGI:1914649
See related
Ensembl:ENSMUSG00000021493
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
Eni; LMP
Expression
Broad expression in bladder adult (RPKM 74.8), ovary adult (RPKM 59.7) and 26 other tissues See more
Orthologs
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Genomic context

See Pdlim7 in Genome Data Viewer
Location:
13; 13 B1
Exon count:
15
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (55645300..55661281, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (55497487..55513473, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 13 NC_000079.5 (55598848..55614800, complement)

Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene proline rich 7 (synaptic) Neighboring gene drebrin 1 Neighboring gene microRNA 6944 Neighboring gene microRNA 6945 Neighboring gene docking protein 3 Neighboring gene DEAD box helicase 41 Neighboring gene predicted gene, 46416

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 Functions

What's a GeneRIF?

Variation

Alleles

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • 1110003B01Rik, 2410002J21Rik

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables actin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables muscle alpha-actinin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in actin cytoskeleton organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within actin cytoskeleton organization IPI
Inferred from Physical Interaction
more info
PubMed 
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
 
involved_in heart development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
involved_in muscle structure development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within ossification IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of osteoblast differentiation ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
is_active_in Z disc IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in actin cytoskeleton ISO
Inferred from Sequence Orthology
more info
 
is_active_in adherens junction IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in adherens junction ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
 
part_of filamentous actin IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in focal adhesion ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in ruffle IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in stress fiber IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in stress fiber IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
PDZ and LIM domain protein 7
Names
LIM mineralization protein
protein enigma

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_001114087.2NP_001107559.1  PDZ and LIM domain protein 7 isoform b

    See identical proteins and their annotated locations for NP_001107559.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (b) lacks several exons, and uses an alternate 3'-terminal exon, compared to variant a. This results in a novel 3' coding region and 3' UTR, compared to variant a. The encoded isoform (b) has a shorter and distinct C-terminus, compared to isoform a.
    Source sequence(s)
    AK077998, BY262003
    Consensus CDS
    CCDS49276.1
    UniProtKB/TrEMBL
    Q8BVJ7
    Related
    ENSMUSP00000070153.7, ENSMUST00000069968.13
    Conserved Domains (2) summary
    cd00992
    Location:579
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
    cl02526
    Location:34133
    Peptidase_S41; C-terminal processing peptidase family S41
  2. NM_001114088.2NP_001107560.1  PDZ and LIM domain protein 7 isoform a

    See identical proteins and their annotated locations for NP_001107560.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (a) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AK167476, BY262003, CT009762
    Consensus CDS
    CCDS49275.1
    UniProtKB/Swiss-Prot
    Q3TJD7
    Related
    ENSMUSP00000047173.7, ENSMUST00000046246.13
    Conserved Domains (4) summary
    cd09452
    Location:282333
    LIM1_Enigma; The first LIM domain of Enigma
    cd09456
    Location:341392
    LIM2_Enigma; The second LIM domain of Enigma
    cd09458
    Location:400454
    LIM3_Enigma; The third LIM domain of Enigma
    cd00992
    Location:579
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
  3. NM_026131.4NP_080407.3  PDZ and LIM domain protein 7 isoform c

    See identical proteins and their annotated locations for NP_080407.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (c) has multiple differences in the coding region, and uses an alternate 3'-terminal exon, compared to variant a. The encoded isoform (c) is shorter and has multiple distinct segments, compared to isoform a.
    Source sequence(s)
    AK003338, AK077998, BY262003
    Consensus CDS
    CCDS26547.1
    UniProtKB/Swiss-Prot
    Q3TJD7
    UniProtKB/TrEMBL
    Q8BVJ7
    Related
    ENSMUSP00000064219.7, ENSMUST00000069929.13
    Conserved Domains (2) summary
    cd00992
    Location:579
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
    cl02526
    Location:22164
    Peptidase_S41; C-terminal processing peptidase family S41

RNA

  1. NR_104287.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (d) lacks several exons and contains two alternate exons, compared to variant a. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant a, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK003338, AK033091, AK077998, BY262003

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000079.7 Reference GRCm39 C57BL/6J

    Range
    55645300..55661281 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006517346.4XP_006517409.1  PDZ and LIM domain protein 7 isoform X2

    See identical proteins and their annotated locations for XP_006517409.1

    Related
    ENSMUST00000128910.8
    Conserved Domains (3) summary
    cd09456
    Location:193244
    LIM2_Enigma; The second LIM domain of Enigma
    pfam15936
    Location:837
    DUF4749; Domain of unknown function (DUF4749)
    cl02475
    Location:252306
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  2. XM_036158140.1XP_036014033.1  PDZ and LIM domain protein 7 isoform X2

    Conserved Domains (3) summary
    cd09456
    Location:193244
    LIM2_Enigma; The second LIM domain of Enigma
    pfam15936
    Location:837
    DUF4749; Domain of unknown function (DUF4749)
    cl02475
    Location:252306
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  3. XM_006517345.4XP_006517408.1  PDZ and LIM domain protein 7 isoform X2

    See identical proteins and their annotated locations for XP_006517408.1

    Conserved Domains (3) summary
    cd09456
    Location:193244
    LIM2_Enigma; The second LIM domain of Enigma
    pfam15936
    Location:837
    DUF4749; Domain of unknown function (DUF4749)
    cl02475
    Location:252306
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  4. XM_011244558.3XP_011242860.1  PDZ and LIM domain protein 7 isoform X2

    See identical proteins and their annotated locations for XP_011242860.1

    Conserved Domains (3) summary
    cd09456
    Location:193244
    LIM2_Enigma; The second LIM domain of Enigma
    pfam15936
    Location:837
    DUF4749; Domain of unknown function (DUF4749)
    cl02475
    Location:252306
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  5. XM_006517344.4XP_006517407.1  PDZ and LIM domain protein 7 isoform X1

    Conserved Domains (5) summary
    cd09452
    Location:248299
    LIM1_Enigma; The first LIM domain of Enigma
    cd09456
    Location:307358
    LIM2_Enigma; The second LIM domain of Enigma
    cd09458
    Location:366420
    LIM3_Enigma; The third LIM domain of Enigma
    cd00992
    Location:579
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
    pfam15936
    Location:116151
    DUF4749; Domain of unknown function (DUF4749)
  6. XM_006517349.2XP_006517412.1  PDZ and LIM domain protein 7 isoform X3

    Conserved Domains (2) summary
    PLN00049
    Location:34133
    PLN00049; carboxyl-terminal processing protease; Provisional
    cd00992
    Location:579
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
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