Human Gene FAM8A1 (uc003ncc.3)
  Description: Homo sapiens family with sequence similarity 8, member A1 (FAM8A1), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr6:17,600,518-17,611,950 Size: 11,433 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr6:17,600,641-17,608,570 Size: 7,930 Coding Exon Count: 5 

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 (chr6:17,600,518-17,611,950)mRNA (may differ from genome)Protein (413 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: FA8A1_HUMAN
DESCRIPTION: RecName: Full=Protein FAM8A1; AltName: Full=Autosomal highly conserved protein;
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein (Potential).
TISSUE SPECIFICITY: Ubiquitously expressed, with a higher level of expression in testis.
SIMILARITY: Contains 1 RDD 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


-  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: 19.84 RPKM in Testis
Total median expression: 604.87 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 -41.40123-0.337 Picture PostScript Text
3' UTR -820.743380-0.243 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
IPR010432 - RDD

Pfam Domains:
PF06271 - RDD family

ModBase Predicted Comparative 3D Structure on Q9UBU6
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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 orthologGenome BrowserGenome BrowserNo ortholog
Gene Details  Gene DetailsGene Details 
Gene Sorter  Gene SorterGene Sorter 
  EnsemblFlyBaseWormBase 
   Protein SequenceProtein Sequence 
   AlignmentAlignment 

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


-  Descriptions from all associated GenBank mRNAs
  KJ893913 - Synthetic construct Homo sapiens clone ccsbBroadEn_03307 FAM8A1 gene, encodes complete protein.
LF209776 - JP 2014500723-A/17279: Polycomb-Associated Non-Coding RNAs.
AK312814 - Homo sapiens cDNA, FLJ93246.
AK296393 - Homo sapiens cDNA FLJ52149 complete cds, highly similar to Protein FAM8A1.
AF097027 - Homo sapiens Autosomal Highly Conserved Protein (AHCP) mRNA, complete cds.
BC047881 - Homo sapiens family with sequence similarity 8, member A1, mRNA (cDNA clone MGC:57616 IMAGE:5742372), complete cds.
AK307681 - Homo sapiens cDNA, FLJ97629.
AF086479 - Homo sapiens full length insert cDNA clone ZD90B11.
LF331577 - JP 2014500723-A/139080: Polycomb-Associated Non-Coding RNAs.
JD109319 - Sequence 90343 from Patent EP1572962.
JD360738 - Sequence 341762 from Patent EP1572962.
JD306154 - Sequence 287178 from Patent EP1572962.
AK074301 - Homo sapiens cDNA FLJ23721 fis, clone HEP13789.
JD280031 - Sequence 261055 from Patent EP1572962.
JD324624 - Sequence 305648 from Patent EP1572962.
LF331578 - JP 2014500723-A/139081: Polycomb-Associated Non-Coding RNAs.
JD206554 - Sequence 187578 from Patent EP1572962.
JD181859 - Sequence 162883 from Patent EP1572962.
JD340481 - Sequence 321505 from Patent EP1572962.
JD205936 - Sequence 186960 from Patent EP1572962.
JD440201 - Sequence 421225 from Patent EP1572962.
JD039093 - Sequence 20117 from Patent EP1572962.
JD299605 - Sequence 280629 from Patent EP1572962.
JD544391 - Sequence 525415 from Patent EP1572962.
JD242311 - Sequence 223335 from Patent EP1572962.
AL050128 - Homo sapiens mRNA; cDNA DKFZp586G051 (from clone DKFZp586G051).
JD357201 - Sequence 338225 from Patent EP1572962.
JD363099 - Sequence 344123 from Patent EP1572962.
JD447540 - Sequence 428564 from Patent EP1572962.
JD048274 - Sequence 29298 from Patent EP1572962.
JD165397 - Sequence 146421 from Patent EP1572962.
JD146580 - Sequence 127604 from Patent EP1572962.
LF331579 - JP 2014500723-A/139082: Polycomb-Associated Non-Coding RNAs.
LF331580 - JP 2014500723-A/139083: Polycomb-Associated Non-Coding RNAs.
MA567154 - JP 2018138019-A/139080: Polycomb-Associated Non-Coding RNAs.
MA567155 - JP 2018138019-A/139081: Polycomb-Associated Non-Coding RNAs.
MA567156 - JP 2018138019-A/139082: Polycomb-Associated Non-Coding RNAs.
MA567157 - JP 2018138019-A/139083: Polycomb-Associated Non-Coding RNAs.
MA445353 - JP 2018138019-A/17279: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: AHCP, B2R725, FA8A1_HUMAN, NM_016255, NP_057339, Q9UBU6
UCSC ID: uc003ncc.3
RefSeq Accession: NM_016255
Protein: Q9UBU6 (aka FA8A1_HUMAN)
CCDS: CCDS4540.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_016255.2
exon count: 5CDS single in 3' UTR: no RNA size: 4762
ORF size: 1242CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2684.00frame shift in genome: no % Coverage: 99.64
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.