Human Gene SIGIRR (uc001lpf.2)
  Description: Homo sapiens single immunoglobulin and toll-interleukin 1 receptor (TIR) domain (SIGIRR), transcript variant 2, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr11:405,716-417,397 Size: 11,682 Total Exon Count: 10 Strand: -
Coding Region
   Position: hg19 chr11:405,896-409,874 Size: 3,979 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther NamesModel Information
Methods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:405,716-417,397)mRNA (may differ from genome)Protein (410 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMalacardsMGI
neXtProtOMIMPubMedReactomeTreefamUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SIGIR_HUMAN
DESCRIPTION: RecName: Full=Single Ig IL-1-related receptor; AltName: Full=Single Ig IL-1R-related molecule; AltName: Full=Single immunoglobulin domain-containing IL1R-related protein; AltName: Full=Toll/interleukin-1 receptor 8; Short=TIR8;
FUNCTION: Acts as a negative regulator of the Toll-like and IL-1R receptor signaling pathways. Attenuates the recruitment of receptor-proximal signaling components to the TLR4 receptor, probably through an TIR-TIR domain interaction with TLR4. Through its extracellular domain interferes with the heterodimerization of Il1R1 and IL1RAP.
SUBUNIT: Interacts with IL1R1, IRAK1, TLR4, TLR5, TLR9 and TRAF6. Upon IL-1 stimulation found in a complex at least composed of IL1R1, SIGIRR, MYD88, IRAK1 and TRAF6. Upon stimulation with LPC found in a complex at least composed of TLR4, SIG1IR, MYD88, IRAK1 and TRAF6. Interacts with PALM3.
SUBCELLULAR LOCATION: Membrane; Single-pass type III membrane protein (Potential).
TISSUE SPECIFICITY: Mainly expressed in epithelial tissues such as kidney, lung and gut.
INDUCTION: Down-regulated during inflammation by inhibition of an SP1-mediated pathway.
SIMILARITY: Belongs to the interleukin-1 receptor family.
SIMILARITY: Contains 1 Ig-like C2-type (immunoglobulin-like) domain.
SIMILARITY: Contains 1 TIR domain.

-  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): SIGIRR
CDC HuGE Published Literature: SIGIRR

-  MalaCards Disease Associations
  MalaCards Gene Search: SIGIRR
Diseases sorted by gene-association score: perinatal necrotizing enterocolitis (4)

-  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: 44.49 RPKM in Spleen
Total median expression: 626.52 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 -120.90257-0.470 Picture PostScript Text
3' UTR -74.80180-0.416 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
IPR015621 - IL1-receptor_fam
IPR004075 - IL1_rcpt_1
IPR000157 - TIR_dom

Pfam Domains:
PF01582 - TIR domain
PF13676 - TIR domain

SCOP Domains:
48726 - Immunoglobulin
52200 - Toll/Interleukin receptor TIR domain

ModBase Predicted Comparative 3D Structure on Q6IA17
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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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

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

Biological Process:
GO:0001960 negative regulation of cytokine-mediated signaling pathway
GO:0006953 acute-phase response
GO:0007165 signal transduction
GO:0031665 negative regulation of lipopolysaccharide-mediated signaling pathway
GO:0043433 negative regulation of sequence-specific DNA binding transcription factor activity
GO:0045079 negative regulation of chemokine biosynthetic process
GO:0071345 cellular response to cytokine stimulus

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  BC003591 - Homo sapiens single immunoglobulin and toll-interleukin 1 receptor (TIR) domain, mRNA (cDNA clone MGC:4338 IMAGE:2821373), complete cds.
BC106007 - Homo sapiens single immunoglobulin and toll-interleukin 1 receptor (TIR) domain, mRNA (cDNA clone MGC:110992 IMAGE:6092503), complete cds.
BC025953 - Homo sapiens single immunoglobulin and toll-interleukin 1 receptor (TIR) domain, mRNA (cDNA clone MGC:39141 IMAGE:3939162), complete cds.
AK025099 - Homo sapiens cDNA: FLJ21446 fis, clone COL04458.
AK172830 - Homo sapiens cDNA FLJ23991 fis, clone HRC08504, highly similar to Homo sapiens single Ig IL-1R-related molecule (SIGIRR).
AK093427 - Homo sapiens cDNA FLJ36108 fis, clone TESTI2021895, moderately similar to Mus musculus toll/interleukin-1 receptor 8 (TIR8) mRNA.
JD068348 - Sequence 49372 from Patent EP1572962.
JD134913 - Sequence 115937 from Patent EP1572962.
JD387111 - Sequence 368135 from Patent EP1572962.
AY358342 - Homo sapiens clone DNA38649 SIGIRR (UNQ301) mRNA, complete cds.
JD361840 - Sequence 342864 from Patent EP1572962.
DQ893453 - Synthetic construct clone IMAGE:100006083; FLH192978.01X; RZPDo839B0578D single immunoglobulin and toll-interleukin 1 receptor (TIR) domain (SIGIRR) gene, encodes complete protein.
MF095124 - Homo sapiens interleukin-1 receptor 8 long isoform (SIGIRR) mRNA, complete cds.
DQ896290 - Synthetic construct Homo sapiens clone IMAGE:100010750; FLH192974.01L; RZPDo839B0568D single immunoglobulin and toll-interleukin 1 receptor (TIR) domain (SIGIRR) gene, encodes complete protein.
AB590151 - Synthetic construct DNA, clone: pFN21AB7768, Homo sapiens SIGIRR gene for single immunoglobulin and toll-interleukin 1 receptor (TIR) domain, without stop codon, in Flexi system.
CR457338 - Homo sapiens full open reading frame cDNA clone RZPDo834H0613D for gene SIGIRR, single Ig IL-1R-related molecule; complete cds, incl. stopcodon.
JD463379 - Sequence 444403 from Patent EP1572962.
JD493454 - Sequence 474478 from Patent EP1572962.
JD234285 - Sequence 215309 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q6IA17 (Reactome details) participates in the following event(s):

R-HSA-9008577 IL37:IL18R1 binds SIGIRR
R-HSA-9008059 Interleukin-37 signaling
R-HSA-446652 Interleukin-1 family signaling
R-HSA-449147 Signaling by Interleukins
R-HSA-1280215 Cytokine Signaling in Immune system
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: NM_001135053, NP_068577, Q3KQY2, Q6IA17, Q6UXI3, Q9H733, SIGIR_HUMAN, UNQ301/PRO342
UCSC ID: uc001lpf.2
RefSeq Accession: NM_001135053
Protein: Q6IA17 (aka SIGIR_HUMAN)
CCDS: CCDS31325.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001135053.1
exon count: 10CDS single in 3' UTR: no RNA size: 1688
ORF size: 1233CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2059.00frame shift in genome: no % Coverage: 98.93
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.