Human Gene FAM171A2 (uc002igs.2)
  Description: Homo sapiens family with sequence similarity 171, member A2 (FAM171A2), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr17:42,431,101-42,441,235 Size: 10,135 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg19 chr17:42,431,101-42,441,082 Size: 9,982 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:42,431,101-42,441,235)mRNA (may differ from genome)Protein (826 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
PubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: F1712_HUMAN
DESCRIPTION: RecName: Full=Protein FAM171A2; Flags: Precursor;
SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein (Potential).
SIMILARITY: Belongs to the FAM171 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


-  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: 14.05 RPKM in Brain - Cerebellum
Total median expression: 132.72 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -95.00153-0.621 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
IPR018890 - Uncharacterised_FAM171

Pfam Domains:
PF10577 - Uncharacterised protein family UPF0560

ModBase Predicted Comparative 3D Structure on A8MVW0
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 orthologGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  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
  BC029298 - Homo sapiens family with sequence similarity 171, member A2, mRNA (cDNA clone IMAGE:5174838).
BC030200 - Homo sapiens family with sequence similarity 171, member A2, mRNA (cDNA clone IMAGE:5200498), complete cds.
JD023632 - Sequence 4656 from Patent EP1572962.
JD029533 - Sequence 10557 from Patent EP1572962.
KJ904119 - Synthetic construct Homo sapiens clone ccsbBroadEn_13513 FAM171A2 gene, encodes complete protein.
JD230412 - Sequence 211436 from Patent EP1572962.
JD267305 - Sequence 248329 from Patent EP1572962.
JD416414 - Sequence 397438 from Patent EP1572962.
JD021371 - Sequence 2395 from Patent EP1572962.
JD029282 - Sequence 10306 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A8MQB4, A8MVW0, F1712_HUMAN, NM_198475, NP_940877
UCSC ID: uc002igs.2
RefSeq Accession: NM_198475
Protein: A8MVW0 (aka F1712_HUMAN)
CCDS: CCDS45701.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_198475.2
exon count: 8CDS single in 3' UTR: no RNA size: 2634
ORF size: 2481CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4078.00frame shift in genome: no % Coverage: 100.00
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.