Human Gene IGSF21 (ENST00000251296.4) from GENCODE V44
  Description: Homo sapiens immunoglobin superfamily member 21 (IGSF21), mRNA. (from RefSeq NM_032880)
RefSeq Summary (NM_032880): This gene encodes a protein which has two immunoglobulin (Ig) domains and is a member of the immunoglobulin superfamily. Proteins in this superfamily are usually found on or in cell membranes and act as receptors in immune response pathways. [provided by RefSeq, Sep 2011].
Gencode Transcript: ENST00000251296.4
Gencode Gene: ENSG00000117154.12
Transcript (Including UTRs)
   Position: hg38 chr1:18,107,798-18,378,483 Size: 270,686 Total Exon Count: 10 Strand: +
Coding Region
   Position: hg38 chr1:18,108,129-18,378,326 Size: 270,198 Coding Exon Count: 10 

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 (chr1:18,107,798-18,378,483)mRNA (may differ from genome)Protein (467 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMGImyGene2neXtProt
PubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: IGS21_HUMAN
DESCRIPTION: RecName: Full=Immunoglobulin superfamily member 21; Short=IgSF21; Flags: Precursor;
SUBCELLULAR LOCATION: Secreted (Potential).
SIMILARITY: Contains 2 Ig-like (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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 71.83 RPKM in Brain - Cerebellum
Total median expression: 346.45 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 -184.20331-0.556 Picture PostScript Text
3' UTR -20.50157-0.131 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
IPR007110 - Ig-like
IPR013783 - Ig-like_fold
IPR003599 - Ig_sub
IPR013106 - Ig_V-set

Pfam Domains:
PF07686 - Immunoglobulin V-set domain

ModBase Predicted Comparative 3D Structure on Q96ID5
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
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:0060074 synapse maturation

Cellular Component:
GO:0005576 extracellular region
GO:0031362 anchored component of external side of plasma membrane
GO:0042734 presynaptic membrane
GO:0060077 inhibitory synapse


-  Descriptions from all associated GenBank mRNAs
  AK075316 - Homo sapiens cDNA FLJ90835 fis, clone Y79AA1002022, weakly similar to POLIOVIRUS RECEPTOR HOMOLOG PRECURSOR.
BC007618 - Homo sapiens immunoglobin superfamily, member 21, mRNA (cDNA clone MGC:15730 IMAGE:3355289), complete cds.
EU832427 - Synthetic construct Homo sapiens clone HAIB:100067456; DKFZo004G0828 immunoglobin superfamily, member 21 protein (IGSF21) gene, encodes complete protein.
EU832342 - Synthetic construct Homo sapiens clone HAIB:100067371; DKFZo008G0827 immunoglobin superfamily, member 21 protein (IGSF21) gene, encodes complete protein.
AB590592 - Synthetic construct DNA, clone: pFN21AE1929, Homo sapiens IGSF21 gene for immunoglobin superfamily, member 21, without stop codon, in Flexi system.
AK294121 - Homo sapiens cDNA FLJ55949 complete cds, highly similar to Immunoglobulin superfamily member 21 precursor.
JD478169 - Sequence 459193 from Patent EP1572962.
JD125891 - Sequence 106915 from Patent EP1572962.
JD389861 - Sequence 370885 from Patent EP1572962.
JD458331 - Sequence 439355 from Patent EP1572962.
AK123172 - Homo sapiens cDNA FLJ41177 fis, clone BRACE2042628, highly similar to Immunoglobulin superfamily member 21 precursor.
AK092618 - Homo sapiens cDNA FLJ35299 fis, clone PROST2009347.
AX747631 - Sequence 1156 from Patent EP1308459.
JD191292 - Sequence 172316 from Patent EP1572962.
JD125289 - Sequence 106313 from Patent EP1572962.
JD142749 - Sequence 123773 from Patent EP1572962.
JD080608 - Sequence 61632 from Patent EP1572962.
JD500982 - Sequence 482006 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000251296.1, ENST00000251296.2, ENST00000251296.3, IGS21_HUMAN, NM_032880, Q8NBR8, Q96ID5, uc001bau.1, uc001bau.2, uc001bau.3, uc001bau.4
UCSC ID: ENST00000251296.4
RefSeq Accession: NM_032880
Protein: Q96ID5 (aka IGS21_HUMAN)
CCDS: CCDS184.1

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