Human Gene IGDCC3 (ENST00000327987.9) from GENCODE V44
  Description: Homo sapiens immunoglobulin superfamily DCC subclass member 3 (IGDCC3), mRNA. (from RefSeq NM_004884)
Gencode Transcript: ENST00000327987.9
Gencode Gene: ENSG00000174498.14
Transcript (Including UTRs)
   Position: hg38 chr15:65,327,127-65,378,002 Size: 50,876 Total Exon Count: 14 Strand: -
Coding Region
   Position: hg38 chr15:65,328,909-65,377,788 Size: 48,880 Coding Exon Count: 14 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr15:65,327,127-65,378,002)mRNA (may differ from genome)Protein (814 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: IGDC3_HUMAN
DESCRIPTION: RecName: Full=Immunoglobulin superfamily DCC subclass member 3; AltName: Full=Putative neuronal cell adhesion molecule; Flags: Precursor;
SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein.
SIMILARITY: Belongs to the immunoglobulin superfamily. DCC family.
SIMILARITY: Contains 2 fibronectin type-III domains.
SIMILARITY: Contains 4 Ig-like C2-type (immunoglobulin-like) domains.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 4.35 RPKM in Brain - Cerebellum
Total median expression: 26.84 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -108.20214-0.506 Picture PostScript Text
3' UTR -665.901782-0.374 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR003961 - Fibronectin_type3
IPR007110 - Ig-like
IPR013783 - Ig-like_fold
IPR013098 - Ig_I-set
IPR003598 - Ig_sub2

Pfam Domains:
PF00041 - Fibronectin type III domain
PF07679 - Immunoglobulin I-set domain

ModBase Predicted Comparative 3D Structure on Q8IVU1
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein SequenceProtein Sequence   
AlignmentAlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0050885 neuromuscular process controlling balance

Cellular Component:
GO:0005887 integral component of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AK095529 - Homo sapiens cDNA FLJ38210 fis, clone FCBBF1000546, highly similar to neuronal cell adhesion molecule precursor.
JD428751 - Sequence 409775 from Patent EP1572962.
AF063936 - Homo sapiens putative neuronal cell adhesion molecule (PUNC) mRNA, partial cds.
JD419969 - Sequence 400993 from Patent EP1572962.
JD036554 - Sequence 17578 from Patent EP1572962.
BC042054 - Homo sapiens immunoglobulin superfamily, DCC subclass, member 3, mRNA (cDNA clone MGC:50440 IMAGE:5579570), complete cds.
BC067107 - Homo sapiens immunoglobulin superfamily, DCC subclass, member 3, mRNA (cDNA clone MGC:71289 IMAGE:6644528), complete cds.
JD377459 - Sequence 358483 from Patent EP1572962.
JD134759 - Sequence 115783 from Patent EP1572962.
JD133960 - Sequence 114984 from Patent EP1572962.
JD086502 - Sequence 67526 from Patent EP1572962.
JD516913 - Sequence 497937 from Patent EP1572962.
KJ898047 - Synthetic construct Homo sapiens clone ccsbBroadEn_07441 IGDCC3 gene, encodes complete protein.
JD122273 - Sequence 103297 from Patent EP1572962.
JD022180 - Sequence 3204 from Patent EP1572962.
JD029960 - Sequence 10984 from Patent EP1572962.
JD479069 - Sequence 460093 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000327987.1, ENST00000327987.2, ENST00000327987.3, ENST00000327987.4, ENST00000327987.5, ENST00000327987.6, ENST00000327987.7, ENST00000327987.8, IGDC3_HUMAN, NM_004884, O95215, PUNC, Q8IVU1, uc002aos.1, uc002aos.2, uc002aos.3
UCSC ID: ENST00000327987.9
RefSeq Accession: NM_004884
Protein: Q8IVU1 (aka IGDC3_HUMAN)
CCDS: CCDS10205.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.