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Igdcc4 immunoglobulin superfamily, DCC subclass, member 4 [ Mus musculus (house mouse) ]

Gene ID: 56741, updated on 28-Oct-2024

Summary

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Official Symbol
Igdcc4provided by MGI
Official Full Name
immunoglobulin superfamily, DCC subclass, member 4provided by MGI
Primary source
MGI:MGI:1858497
See related
Ensembl:ENSMUSG00000032816 AllianceGenome:MGI:1858497
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
Nope; DDM36
Summary
Predicted to be involved in cell-cell adhesion. Predicted to be located in plasma membrane. Is expressed in several structures, including central nervous system; embryo mesenchyme; foregut; limb; and liver and biliary system. Orthologous to human IGDCC4 (immunoglobulin superfamily DCC subclass member 4). [provided by Alliance of Genome Resources, Oct 2024]
Expression
Broad expression in limb E14.5 (RPKM 23.8), ovary adult (RPKM 16.8) and 21 other tissues See more
Orthologs
human all
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Genomic context

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See Igdcc4 in Genome Data Viewer
Location:
9 C; 9 35.1 cM
Exon count:
23
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (65008246..65045225)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (65101023..65137947)

Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E9330 Neighboring gene predicted gene, 39362 Neighboring gene NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2 pseudogene Neighboring gene dipeptidylpeptidase 8 Neighboring gene STARR-seq mESC enhancer starr_24441 Neighboring gene immunoglobulin superfamily, DCC subclass, member 3 Neighboring gene STARR-seq mESC enhancer starr_24448 Neighboring gene predicted gene, 40527 Neighboring gene predicted gene, 25313

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 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. A genome-wide CRISPR/Cas9 gene knockout screen identifies immunoglobulin superfamily DCC subclass member 4 as a key host factor that promotes influenza virus endocytosis. Song Y, et al. PLoS Pathog, 2021 Dec. PMID 34871331, Free PMC Article
  2. Expression of Neighbor of Punc E11 (NOPE) in early stage esophageal adenocarcinoma is associated with reduced survival. Kütting F, et al. Sci Rep, 2022 Mar 4. PMID 35246597, Free PMC Article
  3. Neighbor of Punc E11, a novel oncofetal marker for hepatocellular carcinoma. Marquardt JU, et al. Int J Cancer, 2011 May 15. PMID 20658536
  4. Sequence analysis of 497 mouse brain ESTs expressed in the substantia nigra. Stewart GJ, et al. Genomics, 1997 Jan 15. PMID 9027501
  5. Genomic structure and chromosomal localization of the mouse gene Punc. Salbaum JM. Mamm Genome, 1999 Feb. PMID 9922388

See all (27) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Expression of Neighbor of Punc E11 (NOPE) in early stage esophageal adenocarcinoma is associated with reduced survival.
    Title: Expression of Neighbor of Punc E11 (NOPE) in early stage esophageal adenocarcinoma is associated with reduced survival.
  2. Nope identifies depolarized adult hepatocytes after cholestatic liver injury resembling early postnatal hepatocytes.
    Title: Depolarized Hepatocytes Express the Stem/Progenitor Cell Marker Neighbor of Punc E11 After Bile Duct Ligation in Mice.
  3. Nope expression at the protein level decreases postnatally in mice.
    Title: Neighbor of Punc E 11: expression pattern of the new hepatic stem/progenitor cell marker during murine liver development.
  4. identified Nope as a novel oncofetal surface marker for murine and human HCC. Nope is specifically expressed by epithelial tumor cells but not in preneoplastic stages and is a promising marker
    Title: Neighbor of Punc E11, a novel oncofetal marker for hepatocellular carcinoma.
Submit: New GeneRIF Correction

Variation

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Alleles

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

General gene information

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Markers

Homology

Clone Names

  • mKIAA1628, 9330155G14Rik

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 cell-cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in plasma membrane ISA
Inferred from Sequence Alignment
more info
 PubMed 

General protein information

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Preferred Names
immunoglobulin superfamily DCC subclass member 4
Names
amplimer WI-16786, mouse homolog
amplimer WI-18508, mouse homolog
neighbor of Punc e11 protein

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_001290315.2 → NP_001277244.1  immunoglobulin superfamily DCC subclass member 4 isoform 1 precursor

    See identical proteins and their annotated locations for NP_001277244.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC122463, AC161366
    Consensus CDS
    CCDS72258.1
    Related
    ENSMUSP00000045387.4, ENSMUST00000035499.5
    Conserved Domains (6) summary
    smart00408
    Location:155 → 217
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:249 → 330
    IG_like; Immunoglobulin like
    cd00063
    Location:850 → 942
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam07679
    Location:334 → 421
    I-set; Immunoglobulin I-set domain
    pfam00041
    Location:429 → 514
    fn3; Fibronectin type III domain
    cl11960
    Location:349 → 421
    Ig; Immunoglobulin domain

  2. NM_020043.4 → NP_064427.2  immunoglobulin superfamily DCC subclass member 4 isoform 2 precursor

    See identical proteins and their annotated locations for NP_064427.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the central coding region, compared to variant 1. The encoded isoform (2) is shorter, compared to isoform 1.
    Source sequence(s)
    AC122463, AC161366
    Consensus CDS
    CCDS90598.1
    UniProtKB/Swiss-Prot
    Q80TB0, Q9EQS8, Q9EQS9, Q9JLI1
    Related
    ENSMUSP00000150272.2, ENSMUST00000213533.2
    Conserved Domains (6) summary
    smart00408
    Location:155 → 217
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:249 → 330
    IG_like; Immunoglobulin like
    cd00063
    Location:849 → 941
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam07679
    Location:334 → 421
    I-set; Immunoglobulin I-set domain
    pfam00041
    Location:429 → 514
    fn3; Fibronectin type III domain
    cl11960
    Location:349 → 421
    Ig; Immunoglobulin domain

RNA

  1. NR_185285.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC122463, AC161366

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_000075.7 Reference GRCm39 C57BL/6J

    Range
    65008246..65045225
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036155152.1 → XP_036011045.1  immunoglobulin superfamily DCC subclass member 4 isoform X15

    Conserved Domains (6) summary
    smart00410
    Location:256 → 337
    IG_like; Immunoglobulin like
    cd00063
    Location:856 → 948
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:436 → 521
    fn3; Fibronectin type III domain
    pfam07679
    Location:151 → 236
    I-set; Immunoglobulin I-set domain
    cd00096
    Location:357 → 365
    Ig; Ig strand B [structural motif]
    cl11960
    Location:356 → 428
    Ig; Immunoglobulin domain

  2. XM_030244474.1 → XP_030100334.1  immunoglobulin superfamily DCC subclass member 4 isoform X13

    Conserved Domains (4) summary
    smart00409
    Location:1 → 69
    IG; Immunoglobulin
    cd00063
    Location:595 → 687
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:168 → 251
    fn3; Fibronectin type III domain
    cl11960
    Location:88 → 160
    Ig; Immunoglobulin domain

  3. XM_030244472.1 → XP_030100332.1  immunoglobulin superfamily DCC subclass member 4 isoform X12

    Conserved Domains (4) summary
    smart00409
    Location:1 → 69
    IG; Immunoglobulin
    cd00063
    Location:596 → 688
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:168 → 251
    fn3; Fibronectin type III domain
    cl11960
    Location:88 → 160
    Ig; Immunoglobulin domain

  4. XM_006511310.3 → XP_006511373.1  immunoglobulin superfamily DCC subclass member 4 isoform X5

    Conserved Domains (5) summary
    smart00409
    Location:249 → 330
    IG; Immunoglobulin
    cd00063
    Location:857 → 949
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:429 → 512
    fn3; Fibronectin type III domain
    pfam07679
    Location:144 → 229
    I-set; Immunoglobulin I-set domain
    cl11960
    Location:349 → 421
    Ig; Immunoglobulin domain

  5. XM_030244467.2 → XP_030100327.1  immunoglobulin superfamily DCC subclass member 4 isoform X6

    Conserved Domains (5) summary
    smart00410
    Location:249 → 330
    IG_like; Immunoglobulin like
    cd00063
    Location:856 → 948
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:429 → 512
    fn3; Fibronectin type III domain
    pfam07679
    Location:144 → 229
    I-set; Immunoglobulin I-set domain
    cl11960
    Location:349 → 421
    Ig; Immunoglobulin domain

  6. XM_036155150.1 → XP_036011043.1  immunoglobulin superfamily DCC subclass member 4 isoform X10

    Conserved Domains (6) summary
    smart00410
    Location:249 → 330
    IG_like; Immunoglobulin like
    cd00063
    Location:802 → 894
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:577 → 671
    fn3; Fibronectin type III domain
    pfam07679
    Location:144 → 229
    I-set; Immunoglobulin I-set domain
    cd00096
    Location:350 → 358
    Ig; Ig strand B [structural motif]
    cl11960
    Location:349 → 421
    Ig; Immunoglobulin domain

  7. XM_030244469.2 → XP_030100329.1  immunoglobulin superfamily DCC subclass member 4 isoform X11

    Conserved Domains (5) summary
    smart00409
    Location:249 → 330
    IG; Immunoglobulin
    cd00063
    Location:801 → 893
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:576 → 670
    fn3; Fibronectin type III domain
    pfam07679
    Location:144 → 229
    I-set; Immunoglobulin I-set domain
    cl11960
    Location:349 → 421
    Ig; Immunoglobulin domain

  8. XM_006511311.3 → XP_006511374.1  immunoglobulin superfamily DCC subclass member 4 isoform X7

    Conserved Domains (5) summary
    smart00410
    Location:301 → 382
    IG_like; Immunoglobulin like
    cd00063
    Location:854 → 946
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:629 → 723
    fn3; Fibronectin type III domain
    pfam07679
    Location:196 → 281
    I-set; Immunoglobulin I-set domain
    cl11960
    Location:401 → 473
    Ig; Immunoglobulin domain

  9. XM_036155149.1 → XP_036011042.1  immunoglobulin superfamily DCC subclass member 4 isoform X8

    Conserved Domains (6) summary
    smart00410
    Location:301 → 382
    IG_like; Immunoglobulin like
    cd00063
    Location:853 → 945
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:628 → 722
    fn3; Fibronectin type III domain
    pfam07679
    Location:196 → 281
    I-set; Immunoglobulin I-set domain
    cd00096
    Location:402 → 410
    Ig; Ig strand B [structural motif]
    cl11960
    Location:401 → 473
    Ig; Immunoglobulin domain

  10. XM_006511306.3 → XP_006511369.1  immunoglobulin superfamily DCC subclass member 4 isoform X1

    Conserved Domains (5) summary
    smart00409
    Location:301 → 382
    IG; Immunoglobulin
    cd00063
    Location:909 → 1001
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:481 → 564
    fn3; Fibronectin type III domain
    pfam07679
    Location:196 → 281
    I-set; Immunoglobulin I-set domain
    cl11960
    Location:401 → 473
    Ig; Immunoglobulin domain

  11. XM_006511308.1 → XP_006511371.1  immunoglobulin superfamily DCC subclass member 4 isoform X3

    Conserved Domains (5) summary
    smart00410
    Location:301 → 382
    IG_like; Immunoglobulin like
    cd00063
    Location:902 → 994
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:481 → 564
    fn3; Fibronectin type III domain
    pfam07679
    Location:196 → 281
    I-set; Immunoglobulin I-set domain
    cl11960
    Location:401 → 473
    Ig; Immunoglobulin domain

  12. XM_006511307.3 → XP_006511370.1  immunoglobulin superfamily DCC subclass member 4 isoform X2

    Conserved Domains (5) summary
    smart00409
    Location:301 → 382
    IG; Immunoglobulin
    cd00063
    Location:908 → 1000
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:481 → 564
    fn3; Fibronectin type III domain
    pfam07679
    Location:196 → 281
    I-set; Immunoglobulin I-set domain
    cl11960
    Location:401 → 473
    Ig; Immunoglobulin domain

  13. XM_006511309.1 → XP_006511372.1  immunoglobulin superfamily DCC subclass member 4 isoform X4

    Conserved Domains (5) summary
    smart00410
    Location:301 → 382
    IG_like; Immunoglobulin like
    cd00063
    Location:901 → 993
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:481 → 564
    fn3; Fibronectin type III domain
    pfam07679
    Location:196 → 281
    I-set; Immunoglobulin I-set domain
    cl11960
    Location:401 → 473
    Ig; Immunoglobulin domain

  14. XM_030244468.2 → XP_030100328.1  immunoglobulin superfamily DCC subclass member 4 isoform X9

    Conserved Domains (5) summary
    smart00410
    Location:301 → 382
    IG_like; Immunoglobulin like
    cd00063
    Location:846 → 938
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:628 → 722
    fn3; Fibronectin type III domain
    pfam07679
    Location:196 → 281
    I-set; Immunoglobulin I-set domain
    cl11960
    Location:401 → 473
    Ig; Immunoglobulin domain

  15. XM_030244471.2 → XP_030100331.1  immunoglobulin superfamily DCC subclass member 4 isoform X12

    Conserved Domains (4) summary
    smart00409
    Location:1 → 69
    IG; Immunoglobulin
    cd00063
    Location:596 → 688
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:168 → 251
    fn3; Fibronectin type III domain
    cl11960
    Location:88 → 160
    Ig; Immunoglobulin domain

  16. XM_030244473.2 → XP_030100333.1  immunoglobulin superfamily DCC subclass member 4 isoform X12

    Conserved Domains (4) summary
    smart00409
    Location:1 → 69
    IG; Immunoglobulin
    cd00063
    Location:596 → 688
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:168 → 251
    fn3; Fibronectin type III domain
    cl11960
    Location:88 → 160
    Ig; Immunoglobulin domain

  17. XM_030244470.2 → XP_030100330.1  immunoglobulin superfamily DCC subclass member 4 isoform X12

    Conserved Domains (4) summary
    smart00409
    Location:1 → 69
    IG; Immunoglobulin
    cd00063
    Location:596 → 688
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:168 → 251
    fn3; Fibronectin type III domain
    cl11960
    Location:88 → 160
    Ig; Immunoglobulin domain

  18. XM_036155151.1 → XP_036011044.1  immunoglobulin superfamily DCC subclass member 4 isoform X14

    Conserved Domains (5) summary
    smart00409
    Location:1 → 69
    IG; Immunoglobulin
    cd00063
    Location:534 → 626
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:316 → 410
    fn3; Fibronectin type III domain
    cd00096
    Location:89 → 97
    Ig; Ig strand B [structural motif]
    cl11960
    Location:88 → 160
    Ig; Immunoglobulin domain

RNA

  1. XR_004935499.1 RNA Sequence

  2. XR_001778946.2 RNA Sequence

  3. XR_379432.4 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9EQS9.1 GenPept UniProtKB/Swiss-Prot:Q9EQS9

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