Human Gene IGSF22 (uc009yht.2)
  Description: Homo sapiens immunoglobulin superfamily, member 22 (IGSF22), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr11:18,725,852-18,747,777 Size: 21,926 Total Exon Count: 23 Strand: -
Coding Region
   Position: hg19 chr11:18,726,015-18,745,783 Size: 19,769 Coding Exon Count: 22 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:18,725,852-18,747,777)mRNA (may differ from genome)Protein (1326 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIPubMed
UniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: D6RGV7_HUMAN
DESCRIPTION: SubName: Full=Immunoglobulin superfamily member 22;
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  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

+  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: 1.26 RPKM in Brain - Nucleus accumbens (basal ganglia)
Total median expression: 20.29 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 -66.80190-0.352 Picture PostScript Text
3' UTR -50.52163-0.310 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
IPR003599 - Ig_sub
IPR003598 - Ig_sub2

Pfam Domains:
PF00041 - Fibronectin type III domain
PF00047 - Immunoglobulin domain
PF07679 - Immunoglobulin I-set domain
PF13895 - Immunoglobulin domain
PF13927 - Immunoglobulin domain

SCOP Domains:
48726 - Immunoglobulin
49265 - Fibronectin type III

ModBase Predicted Comparative 3D Structure on D6RGV7
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
      
      
      
      
      

-  Descriptions from all associated GenBank mRNAs
  AK095113 - Homo sapiens cDNA FLJ37794 fis, clone BRHIP3000488.
BC115396 - Homo sapiens cDNA clone IMAGE:40068570.
BC115397 - Homo sapiens immunoglobulin superfamily, member 22, mRNA (cDNA clone MGC:134854 IMAGE:40068579), complete cds.
JD279442 - Sequence 260466 from Patent EP1572962.
JD436879 - Sequence 417903 from Patent EP1572962.
JD565223 - Sequence 546247 from Patent EP1572962.
JD276136 - Sequence 257160 from Patent EP1572962.
JD563885 - Sequence 544909 from Patent EP1572962.
JD188776 - Sequence 169800 from Patent EP1572962.
JD334211 - Sequence 315235 from Patent EP1572962.
JD517061 - Sequence 498085 from Patent EP1572962.
JD144218 - Sequence 125242 from Patent EP1572962.
JD361553 - Sequence 342577 from Patent EP1572962.
JD257322 - Sequence 238346 from Patent EP1572962.
JD333471 - Sequence 314495 from Patent EP1572962.
JD203276 - Sequence 184300 from Patent EP1572962.
JD265307 - Sequence 246331 from Patent EP1572962.
JD079694 - Sequence 60718 from Patent EP1572962.
JD564667 - Sequence 545691 from Patent EP1572962.
JD067796 - Sequence 48820 from Patent EP1572962.
JD303774 - Sequence 284798 from Patent EP1572962.
JD379475 - Sequence 360499 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: D6RGV7, D6RGV7_HUMAN, NM_173588, NP_775859
UCSC ID: uc009yht.2
RefSeq Accession: NM_173588
Protein: D6RGV7 CCDS: CCDS41625.2

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_173588.3
exon count: 23CDS single in 3' UTR: no RNA size: 4360
ORF size: 3981CDS single in intron: no Alignment % ID: 99.98
txCdsPredict score: 8090.00frame shift in genome: no % Coverage: 99.40
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.