Human Gene TVP23C (uc002goq.2)
  Description: Homo sapiens trans-golgi network vesicle protein 23 homolog C (S. cerevisiae) (TVP23C), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr17:15,405,578-15,466,945 Size: 61,368 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr17:15,406,178-15,466,762 Size: 60,585 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersGene AllelesRNA-Seq Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther Names
Model InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:15,405,578-15,466,945)mRNA (may differ from genome)Protein (276 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
PubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: F18B2_HUMAN
DESCRIPTION: RecName: Full=Protein FAM18B2;
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein (Potential).
SIMILARITY: Belongs to the FAM18/TVP23 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


+  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: 1.01 RPKM in Pituitary
Total median expression: 16.78 RPKM



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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -82.70183-0.452 Picture PostScript Text
3' UTR -198.10600-0.330 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
IPR008564 - DUF846_euk

Pfam Domains:
PF05832 - Eukaryotic protein of unknown function (DUF846)

ModBase Predicted Comparative 3D Structure on Q96ET8
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 Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0009306 protein secretion
GO:0016192 vesicle-mediated transport

Cellular Component:
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030173 integral component of Golgi membrane


-  Descriptions from all associated GenBank mRNAs
  AB074181 - Homo sapiens primary neuroblastoma cDNA, clone:Nbla10383, full insert sequence.
AK303475 - Homo sapiens cDNA FLJ53614 complete cds, highly similar to Protein FAM18B.
BC011952 - Homo sapiens family with sequence similarity 18, member B2, mRNA (cDNA clone MGC:8763 IMAGE:3860433), complete cds.
AK310363 - Homo sapiens cDNA, FLJ17405.
LF326224 - JP 2014500723-A/133727: Polycomb-Associated Non-Coding RNAs.
JD100533 - Sequence 81557 from Patent EP1572962.
JD387192 - Sequence 368216 from Patent EP1572962.
JD545879 - Sequence 526903 from Patent EP1572962.
JD434011 - Sequence 415035 from Patent EP1572962.
JD330527 - Sequence 311551 from Patent EP1572962.
JD204510 - Sequence 185534 from Patent EP1572962.
JD265013 - Sequence 246037 from Patent EP1572962.
JD214474 - Sequence 195498 from Patent EP1572962.
JD064280 - Sequence 45304 from Patent EP1572962.
JD065557 - Sequence 46581 from Patent EP1572962.
JD204924 - Sequence 185948 from Patent EP1572962.
LF326223 - JP 2014500723-A/133726: Polycomb-Associated Non-Coding RNAs.
KJ900417 - Synthetic construct Homo sapiens clone ccsbBroadEn_09811 FAM18B2 gene, encodes complete protein.
DQ579005 - Homo sapiens piRNA piR-47117, complete sequence.
LF326214 - JP 2014500723-A/133717: Polycomb-Associated Non-Coding RNAs.
LF326212 - JP 2014500723-A/133715: Polycomb-Associated Non-Coding RNAs.
MA561801 - JP 2018138019-A/133727: Polycomb-Associated Non-Coding RNAs.
MA561800 - JP 2018138019-A/133726: Polycomb-Associated Non-Coding RNAs.
MA561791 - JP 2018138019-A/133717: Polycomb-Associated Non-Coding RNAs.
MA561789 - JP 2018138019-A/133715: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: F18B2_HUMAN, FAM18B2, Nbla10383, NM_145301, NP_660344, Q3LIC7, Q96ET8
UCSC ID: uc002goq.2
RefSeq Accession: NM_145301
Protein: Q96ET8 (aka F18B2_HUMAN)
CCDS: CCDS11170.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_145301.2
exon count: 6CDS single in 3' UTR: no RNA size: 1632
ORF size: 831CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1527.00frame shift in genome: no % Coverage: 98.90
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: 834# 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.