Human Gene NCAM2 (ENST00000400546.6_4) from GENCODE V45lift37
  Description: Homo sapiens neural cell adhesion molecule 2 (NCAM2), transcript variant 2, mRNA. (from RefSeq NM_004540)
RefSeq Summary (NM_004540): The protein encoded by this gene belongs to the immunoglobulin superfamily. It is a type I membrane protein and may function in selective fasciculation and zone-to-zone projection of the primary olfactory axons. [provided by RefSeq, Jul 2008]. Sequence Note: This RefSeq record was created from transcript and genomic sequence data to make the sequence consistent with the reference genome assembly. The genomic coordinates used for the transcript record were based on transcript alignments.
Gencode Transcript: ENST00000400546.6_4
Gencode Gene: ENSG00000154654.15_7
Transcript (Including UTRs)
   Position: hg19 chr21:22,370,727-22,915,650 Size: 544,924 Total Exon Count: 18 Strand: +
Coding Region
   Position: hg19 chr21:22,370,882-22,910,278 Size: 539,397 Coding Exon Count: 18 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureGO Annotations
mRNA DescriptionsOther NamesMethods
Data last updated at UCSC: 2024-04-24 11:59:55

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr21:22,370,727-22,915,650)mRNA (may differ from genome)Protein (837 aa)
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HGNCMGIOMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: NCAM2_HUMAN
DESCRIPTION: RecName: Full=Neural cell adhesion molecule 2; Short=N-CAM-2; Short=NCAM-2; Flags: Precursor;
FUNCTION: May play important roles in selective fasciculation and zone- to-zone projection of the primary olfactory axons.
INTERACTION: O15394; O15394: NCAM2; NbExp=3; IntAct=EBI-2679983, EBI-2679983;
SUBCELLULAR LOCATION: Cell membrane; Single-pass type I membrane protein.
TISSUE SPECIFICITY: Expressed most strongly in adult and fetal brain.

-  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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): NCAM2
CDC HuGE Published Literature: NCAM2
Positive Disease Associations: Alcoholism , Amyotrophic Lateral Sclerosis , Erythrocyte Count , Glucose , Hemoglobins , Hypertrophy, Left Ventricular , Lipids , Longevity , Macular Degeneration , Metabolism , Obesity , Triglycerides
Related Studies:
  1. Alcoholism
    , , . [PubMed 0]
  2. Alcoholism
    , , . [PubMed 0]
  3. Alcoholism
    , , . [PubMed 0]
           more ... click here to view the complete list

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

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 10.18 RPKM in Brain - Frontal Cortex (BA9)
Total median expression: 104.25 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 -63.90155-0.412 Picture PostScript Text
3' UTR -1125.275372-0.209 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 - FN3_dom
IPR036116 - FN3_sf
IPR007110 - Ig-like_dom
IPR036179 - Ig-like_dom_sf
IPR013783 - Ig-like_fold
IPR013098 - Ig_I-set
IPR003599 - Ig_sub
IPR003598 - Ig_sub2
IPR013106 - Ig_V-set
IPR009138 - Neural_cell_adh

Pfam Domains:
PF00041 - Fibronectin type III domain
PF07679 - Immunoglobulin I-set domain
PF13927 - Immunoglobulin domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2DOC - NMR 2JLL - X-ray 2KBG - NMR 2V5T - X-ray 2VAJ - X-ray 2WIM - X-ray 2XY1 - X-ray 2XY2 - X-ray 2XYC - X-ray


ModBase Predicted Comparative 3D Structure on O15394
FrontTopSide
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.

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0042802 identical protein binding

Biological Process:
GO:0007155 cell adhesion
GO:0007158 neuron cell-cell adhesion
GO:0007413 axonal fasciculation
GO:0007608 sensory perception of smell

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0016604 nuclear body
GO:0030424 axon


-  Descriptions from all associated GenBank mRNAs
  BC052946 - Homo sapiens neural cell adhesion molecule 2, mRNA (cDNA clone MGC:51008 IMAGE:5315109), complete cds.
AK299054 - Homo sapiens cDNA FLJ54289 complete cds, highly similar to Neural cell adhesion molecule 2 precursor.
BC036088 - Homo sapiens cDNA clone IMAGE:5274717, containing frame-shift errors.
U75330 - Human neural cell adhesion protein (NCAM21) mRNA, complete cds.
AK302870 - Homo sapiens cDNA FLJ53114 complete cds, highly similar to Neural cell adhesion molecule 2 precursor.
JD247182 - Sequence 228206 from Patent EP1572962.
JD173291 - Sequence 154315 from Patent EP1572962.
JD326675 - Sequence 307699 from Patent EP1572962.
JD287070 - Sequence 268094 from Patent EP1572962.
JD428870 - Sequence 409894 from Patent EP1572962.
JD091954 - Sequence 72978 from Patent EP1572962.
JD042834 - Sequence 23858 from Patent EP1572962.
JD043429 - Sequence 24453 from Patent EP1572962.
JD237898 - Sequence 218922 from Patent EP1572962.
JD510012 - Sequence 491036 from Patent EP1572962.
JD090710 - Sequence 71734 from Patent EP1572962.
JD429010 - Sequence 410034 from Patent EP1572962.
JD310690 - Sequence 291714 from Patent EP1572962.
JD102500 - Sequence 83524 from Patent EP1572962.
JD315721 - Sequence 296745 from Patent EP1572962.
JD314891 - Sequence 295915 from Patent EP1572962.
JD084444 - Sequence 65468 from Patent EP1572962.
JD504965 - Sequence 485989 from Patent EP1572962.
JD521725 - Sequence 502749 from Patent EP1572962.
JD459457 - Sequence 440481 from Patent EP1572962.
JD309784 - Sequence 290808 from Patent EP1572962.
JD041793 - Sequence 22817 from Patent EP1572962.
AL137344 - Homo sapiens mRNA; cDNA DKFZp761I1311 (from clone DKFZp761I1311).

-  Other Names for This Gene
  Alternate Gene Symbols: A8MQ06, ENST00000400546.1, ENST00000400546.2, ENST00000400546.3, ENST00000400546.4, ENST00000400546.5, NCAM21, NCAM2_HUMAN, NM_004540, O15394, Q7Z7F2, uc319axz.1
UCSC ID: ENST00000400546.6_4
RefSeq Accession: NM_004540
Protein: O15394 (aka NCAM2_HUMAN or NCM2_HUMAN)

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