Human Gene CDR2 (ENST00000268383.7_7) from GENCODE V47lift37
  Description: cerebellar degeneration related protein 2 (from RefSeq NM_001802.2)
Gencode Transcript: ENST00000268383.7_7
Gencode Gene: ENSG00000140743.8_12
Transcript (Including UTRs)
   Position: hg19 chr16:22,357,257-22,385,940 Size: 28,684 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr16:22,358,286-22,385,630 Size: 27,345 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:22,357,257-22,385,940)mRNA (may differ from genome)Protein (454 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CDR2_HUMAN
DESCRIPTION: RecName: Full=Cerebellar degeneration-related protein 2; AltName: Full=Major Yo paraneoplastic antigen; AltName: Full=Paraneoplastic cerebellar degeneration-associated antigen;
INTERACTION: Q15014:MORF4L2; NbExp=6; IntAct=EBI-1181367, EBI-399257;
SIMILARITY: Belongs to the CDR2 family.
SEQUENCE CAUTION: Sequence=AAA51961.1; Type=Frameshift; Positions=379, 384, 393; Sequence=AAB20813.1; Type=Erroneous initiation; Sequence=BAA02360.1; Type=Erroneous initiation;

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: CDR2
Diseases sorted by gene-association score: cerebellar degeneration (44), paraneoplastic cerebellar degeneration (31), gait apraxia (2), tetanus neonatorum (1), gamma heavy chain disease (1)

-  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: 27.56 RPKM in Testis
Total median expression: 457.89 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 -181.10310-0.584 Picture PostScript Text
3' UTR -243.101029-0.236 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
IPR026079 - CDR2

SCOP Domains:
58046 - Fibritin

ModBase Predicted Comparative 3D Structure on Q01850
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.

-  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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003674 molecular_function
GO:0005515 protein binding

Cellular Component:
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  LF207881 - JP 2014500723-A/15384: Polycomb-Associated Non-Coding RNAs.
BC017503 - Homo sapiens cerebellar degeneration-related protein 2, 62kDa, mRNA (cDNA clone MGC:23119 IMAGE:4873337), complete cds.
M63256 - Human major Yo paraneoplastic antigen (CDR2) mRNA, 3' end.
JD061421 - Sequence 42445 from Patent EP1572962.
JD162570 - Sequence 143594 from Patent EP1572962.
JD299424 - Sequence 280448 from Patent EP1572962.
LF369761 - JP 2014500723-A/177264: Polycomb-Associated Non-Coding RNAs.
D12981 - Homo sapiens mRNA for paraneoplastic cerebellar degeneration-associated antigen, complete cds.
S78388 - 28S RNA, autoantigen recognized by an anti-neuronal cell antibody [human, mRNA, 2192 nt].
JD081877 - Sequence 62901 from Patent EP1572962.
JD167342 - Sequence 148366 from Patent EP1572962.
JD244923 - Sequence 225947 from Patent EP1572962.
JD157863 - Sequence 138887 from Patent EP1572962.
LF369762 - JP 2014500723-A/177265: Polycomb-Associated Non-Coding RNAs.
AK292273 - Homo sapiens cDNA FLJ77366 complete cds, highly similar to Homo sapiens cerebellar degeneration-related protein 2, 62kDa (CDR2), mRNA.
JD159478 - Sequence 140502 from Patent EP1572962.
JD338013 - Sequence 319037 from Patent EP1572962.
JD193306 - Sequence 174330 from Patent EP1572962.
JD358896 - Sequence 339920 from Patent EP1572962.
JD418267 - Sequence 399291 from Patent EP1572962.
DQ892203 - Synthetic construct clone IMAGE:100004833; FLH184028.01X; RZPDo839B05144D cerebellar degeneration-related protein 2, 62kDa (CDR2) gene, encodes complete protein.
DQ892204 - Synthetic construct Homo sapiens clone IMAGE:100004834; FLH263516.01X; RZPDo839B06144D cerebellar degeneration-related protein 2, 62kDa (CDR2) gene, encodes complete protein.
KJ901334 - Synthetic construct Homo sapiens clone ccsbBroadEn_10728 CDR2 gene, encodes complete protein.
DQ895399 - Synthetic construct Homo sapiens clone IMAGE:100009859; FLH184024.01L; RZPDo839B05143D cerebellar degeneration-related protein 2, 62kDa (CDR2) gene, encodes complete protein.
AB528417 - Synthetic construct DNA, clone: pF1KB0986, Homo sapiens CDR2 gene for cerebellar degeneration-related protein 2, 62kDa, without stop codon, in Flexi system.
LF369763 - JP 2014500723-A/177266: Polycomb-Associated Non-Coding RNAs.
LF369764 - JP 2014500723-A/177267: Polycomb-Associated Non-Coding RNAs.
CU676000 - Synthetic construct Homo sapiens gateway clone IMAGE:100023376 5' read CDR2 mRNA.
LF369765 - JP 2014500723-A/177268: Polycomb-Associated Non-Coding RNAs.
LF369766 - JP 2014500723-A/177269: Polycomb-Associated Non-Coding RNAs.
LF369767 - JP 2014500723-A/177270: Polycomb-Associated Non-Coding RNAs.
LF369768 - JP 2014500723-A/177271: Polycomb-Associated Non-Coding RNAs.
LF369771 - JP 2014500723-A/177274: Polycomb-Associated Non-Coding RNAs.
LF369773 - JP 2014500723-A/177276: Polycomb-Associated Non-Coding RNAs.
JD476329 - Sequence 457353 from Patent EP1572962.
JD479514 - Sequence 460538 from Patent EP1572962.
JD462789 - Sequence 443813 from Patent EP1572962.
MA605338 - JP 2018138019-A/177264: Polycomb-Associated Non-Coding RNAs.
MA605339 - JP 2018138019-A/177265: Polycomb-Associated Non-Coding RNAs.
MA605340 - JP 2018138019-A/177266: Polycomb-Associated Non-Coding RNAs.
MA605341 - JP 2018138019-A/177267: Polycomb-Associated Non-Coding RNAs.
MA605342 - JP 2018138019-A/177268: Polycomb-Associated Non-Coding RNAs.
MA605343 - JP 2018138019-A/177269: Polycomb-Associated Non-Coding RNAs.
MA605344 - JP 2018138019-A/177270: Polycomb-Associated Non-Coding RNAs.
MA605345 - JP 2018138019-A/177271: Polycomb-Associated Non-Coding RNAs.
MA605348 - JP 2018138019-A/177274: Polycomb-Associated Non-Coding RNAs.
MA605350 - JP 2018138019-A/177276: Polycomb-Associated Non-Coding RNAs.
MA443458 - JP 2018138019-A/15384: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A8K8A8, CDR2_HUMAN, ENST00000268383.1, ENST00000268383.2, ENST00000268383.3, ENST00000268383.4, ENST00000268383.5, ENST00000268383.6, NM_001802, PCD17, Q01850, Q13977, uc317inp.1, uc317inp.2
UCSC ID: ENST00000268383.7_7
RefSeq Accession: NM_001802.2
Protein: Q01850 (aka CDR2_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

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