Human Gene RTL8C (ENST00000257013.9_4) from GENCODE V47lift37
  Description: retrotransposon Gag like 8C (from RefSeq NM_001078171.2)
Gencode Transcript: ENST00000257013.9_4
Gencode Gene: ENSG00000134590.14_10
Transcript (Including UTRs)
   Position: hg19 chrX:134,166,385-134,167,576 Size: 1,192 Total Exon Count: 1 Strand: +
Coding Region
   Position: hg19 chrX:134,166,414-134,166,755 Size: 342 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:134,166,385-134,167,576)mRNA (may differ from genome)Protein (113 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
OMIMPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: F127A_HUMAN
DESCRIPTION: RecName: Full=Protein FAM127A; AltName: Full=Mammalian retrotransposon derived protein 8C;
SIMILARITY: Belongs to the FAM127 family.
CAUTION: There seems to be two proteins that can be transcribed from FAM127A, one with a C-terminal CAAX box (AC O15255) and a smaller protein (the sequence shown here) that seems to be encoded by a multicopy gene originating from a retrotransposon.

-  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


+  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: 238.67 RPKM in Brain - Frontal Cortex (BA9)
Total median expression: 6701.70 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 -3.3029-0.114 Picture PostScript Text
3' UTR -259.77821-0.316 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
  Pfam Domains:
PF16297 - Domain of unknown function (DUF4939)

ModBase Predicted Comparative 3D Structure on A6ZKI3
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
      
      
      
      
      

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


-  Descriptions from all associated GenBank mRNAs
  Y13374 - Homo sapiens mRNA for putatively prenylated protein.
AF038168 - Homo sapiens clone 23564 putative prenylated protein mRNA, complete cds.
AF052096 - Homo sapiens clone 23725 putative prenylated protein mRNA, complete cds.
BC106076 - Homo sapiens cDNA clone IMAGE:4451583, containing frame-shift errors.
BC002385 - Homo sapiens family with sequence similarity 127, member A, mRNA (cDNA clone MGC:8656 IMAGE:2961665), complete cds.
BC002410 - Homo sapiens family with sequence similarity 127, member A, mRNA (cDNA clone MGC:8649 IMAGE:2961641), complete cds.
KJ892655 - Synthetic construct Homo sapiens clone ccsbBroadEn_02049 FAM127A gene, encodes complete protein.
JD549896 - Sequence 530920 from Patent EP1572962.
JD437371 - Sequence 418395 from Patent EP1572962.
JD310499 - Sequence 291523 from Patent EP1572962.
JD139245 - Sequence 120269 from Patent EP1572962.
JD409179 - Sequence 390203 from Patent EP1572962.
CR456853 - Homo sapiens full open reading frame cDNA clone RZPDo834E096D for gene CXX1, CAAX box 1; complete cds, incl. stopcodon.
D88756 - Homo sapiens hucep-5 mRNA for cerebral protein-5, complete cds.
DQ891384 - Synthetic construct clone IMAGE:100004014; FLH176412.01X; RZPDo839C12122D CAAX box 1 (CXX1) gene, encodes complete protein.
EU176632 - Synthetic construct Homo sapiens clone IMAGE:100011395; FLH176411.01L; RZPDo839H07254D family with sequence similarity 127, member A (FAM127A) gene, encodes complete protein.
JD298924 - Sequence 279948 from Patent EP1572962.
JD139243 - Sequence 120267 from Patent EP1572962.
JD139244 - Sequence 120268 from Patent EP1572962.
JD392672 - Sequence 373696 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A6ZKI3, CXX1 , ENST00000257013.1, ENST00000257013.2, ENST00000257013.3, ENST00000257013.4, ENST00000257013.5, ENST00000257013.6, ENST00000257013.7, ENST00000257013.8, FAM127A , MAR8 , MAR8C , MART8 , NM_001078171, RTL8C , RTL8C_HUMAN, uc317fwy.1, uc317fwy.2
UCSC ID: ENST00000257013.9_4
RefSeq Accession: NM_001078171.2
Protein: A6ZKI3 (aka F127A_HUMAN)

-  Gene Model Information
  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.