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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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