Human Gene IFI27L1 (uc001yck.3)
  Description: Homo sapiens interferon, alpha-inducible protein 27-like 1 (IFI27L1), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr14:94,547,639-94,569,060 Size: 21,422 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr14:94,563,284-94,568,914 Size: 5,631 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:94,547,639-94,569,060)mRNA (may differ from genome)Protein (104 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblEntrez GeneExonPrimerGeneCardsGeneNetworkH-INV
HGNCHPRDLynxMGIneXtProtOMIM
PubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: I27L1_HUMAN
DESCRIPTION: RecName: Full=Interferon alpha-inducible protein 27-like protein 1; AltName: Full=Interferon-stimulated gene 12c protein; Short=ISG12(c);
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein (Potential).
SIMILARITY: Belongs to the IFI6/IFI27 family.

-  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): IFI27L1
CDC HuGE Published Literature: IFI27L1
Positive Disease Associations: Arteries , Body Weight
Related Studies:
  1. Arteries
    , , . [PubMed 0]
  2. Body Weight
    Ozren Polasek et al. Croatian medical journal 2009, Genome-wide association study of anthropometric traits in Korcula Island, Croatia., Croatian medical journal. [PubMed 19260139]
    Although the study was underpowered for the reported associations to reach formal threshold of genome-wide significance under the assumption of independent multiple testing, the consistency of association between the 2 variants and a set of anthropometric traits makes CRIM1 and ITGA1 highly interesting for further replication and functional follow-up. Increased linkage disequilibrium between the used markers in an isolated population makes the formal significance threshold overly stringent, and changed allele frequencies in isolate population may contribute to identifying variants that would not be easily identified in large outbred populations.

-  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: 36.63 RPKM in Testis
Total median expression: 223.26 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 -86.10254-0.339 Picture PostScript Text
3' UTR -36.50146-0.250 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
IPR009311 - Interferon-induced_6-16

Pfam Domains:
PF06140 - Interferon-induced 6-16 family

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2LOQ - NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q96BM0
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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Cellular Component:
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  JD201806 - Sequence 182830 from Patent EP1572962.
BC015423 - Homo sapiens interferon, alpha-inducible protein 27-like 1, mRNA (cDNA clone MGC:21991 IMAGE:4398045), complete cds.
JD286155 - Sequence 267179 from Patent EP1572962.
GQ129390 - Synthetic construct Homo sapiens clone HAIB:100068702; DKFZo004F0436 family with sequence similarity 14, member B protein (FAM14B) gene, partial cds.
GQ129391 - Synthetic construct Homo sapiens clone HAIB:100068605; DKFZo008F0435 family with sequence similarity 14, member B protein (FAM14B) gene, complete cds.
JF432551 - Synthetic construct Homo sapiens clone IMAGE:100073775 interferon, alpha-inducible protein 27-like 1 (IFI27L1) gene, encodes complete protein.
KJ895367 - Synthetic construct Homo sapiens clone ccsbBroadEn_04761 IFI27L1 gene, encodes complete protein.
DQ593600 - Homo sapiens piRNA piR-33712, complete sequence.
JD117705 - Sequence 98729 from Patent EP1572962.
JD097872 - Sequence 78896 from Patent EP1572962.
JD059392 - Sequence 40416 from Patent EP1572962.
JD108508 - Sequence 89532 from Patent EP1572962.
JD250822 - Sequence 231846 from Patent EP1572962.
JD437459 - Sequence 418483 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: FAM14B, I27L1_HUMAN, NM_145249, NP_996832, Q96BM0
UCSC ID: uc001yck.3
RefSeq Accession: NM_145249
Protein: Q96BM0 (aka I27L1_HUMAN)
CCDS: CCDS9919.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_145249.2
exon count: 5CDS single in 3' UTR: no RNA size: 732
ORF size: 315CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 797.00frame shift in genome: no % Coverage: 97.68
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.