Human Gene GOLGA6C (uc002azs.2)
  Description: Homo sapiens golgin A6 family, member C (GOLGA6C), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr15:75,550,899-75,565,796 Size: 14,898 Total Exon Count: 18 Strand: +
Coding Region
   Position: hg19 chr15:75,550,940-75,562,540 Size: 11,601 Coding Exon Count: 18 

Page IndexSequence and LinksUniProtKB CommentsPrimersGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr15:75,550,899-75,565,796)mRNA (may differ from genome)Protein (693 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblEntrez GeneExonPrimerGeneCardsHGNCLynx
MGIneXtProtPubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: GOG6C_HUMAN
DESCRIPTION: RecName: Full=Putative golgin subfamily A member 6C;
SIMILARITY: Belongs to the GOLGA6 family.
CAUTION: Could be the product of a pseudogene. Maps to a duplicated region on chromosome 15; the gene is present in at least 4 almost identical copies.

-  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: 4.22 RPKM in Testis
Total median expression: 4.30 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 -15.0041-0.366 Picture PostScript Text
3' UTR -924.453256-0.284 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
IPR024858 - Golgin_A

Pfam Domains:
PF15070 - Putative golgin subfamily A member 2-like protein 5

ModBase Predicted Comparative 3D Structure on A6NDK9
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:0005794 Golgi apparatus


-  Descriptions from all associated GenBank mRNAs
  JD346185 - Sequence 327209 from Patent EP1572962.
AF263742 - Homo sapiens golgin-like protein (GLP) mRNA, complete cds.
DQ575133 - Homo sapiens piRNA piR-43245, complete sequence.
JD205481 - Sequence 186505 from Patent EP1572962.
JD379284 - Sequence 360308 from Patent EP1572962.
JD540822 - Sequence 521846 from Patent EP1572962.
JD207426 - Sequence 188450 from Patent EP1572962.
JD159201 - Sequence 140225 from Patent EP1572962.
JD209905 - Sequence 190929 from Patent EP1572962.
JD386836 - Sequence 367860 from Patent EP1572962.
DQ596685 - Homo sapiens piRNA piR-34751, complete sequence.
DQ596686 - Homo sapiens piRNA piR-34752, complete sequence.
JD550392 - Sequence 531416 from Patent EP1572962.
JD155217 - Sequence 136241 from Patent EP1572962.
JD087675 - Sequence 68699 from Patent EP1572962.
JD495939 - Sequence 476963 from Patent EP1572962.
JD400411 - Sequence 381435 from Patent EP1572962.
JD339873 - Sequence 320897 from Patent EP1572962.
JD258292 - Sequence 239316 from Patent EP1572962.
JD520954 - Sequence 501978 from Patent EP1572962.
JD320748 - Sequence 301772 from Patent EP1572962.
JD290978 - Sequence 272002 from Patent EP1572962.
JD236043 - Sequence 217067 from Patent EP1572962.
JD553421 - Sequence 534445 from Patent EP1572962.
JD432742 - Sequence 413766 from Patent EP1572962.
JD203016 - Sequence 184040 from Patent EP1572962.
JD532714 - Sequence 513738 from Patent EP1572962.
JD292049 - Sequence 273073 from Patent EP1572962.
JD046799 - Sequence 27823 from Patent EP1572962.
DQ593686 - Homo sapiens piRNA piR-33798, complete sequence.

-  Other Names for This Gene
  Alternate Gene Symbols: A6NDK9, GOG6C_HUMAN, NM_001164404, NP_001157876
UCSC ID: uc002azs.2
RefSeq Accession: NM_001164404
Protein: A6NDK9 (aka GOG6C_HUMAN)
CCDS: CCDS58388.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001164404.1
exon count: 18CDS single in 3' UTR: no RNA size: 5379
ORF size: 2082CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2720.00frame 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.