NCBI CCDS banner
PubMed Entrez Gene BLAST OMIM
  

CCDS
Home
FTP
Process
Releases & Statistics

Collaborators
EBI
HGNC
MGI
NCBI

Contact Us
email CCDS

Genome Displays

Ensembl
NCBI
UCSC
VEGA

Related Resources
Gene
HomoloGene
MANE
RefSeq


Report for CCDS6037.1 (current version)

CCDS Status Species Chrom. Gene CCDS Release NCBI Annotation Release Ensembl Annotation Release Links
6037.1 Public Homo sapiens 8 TNFRSF10C 24 110 108 CCDS HistoryNCBI Gene:8794Re-query CCDS DB by CCDS ID:6037.1Re-query CCDS DB by GeneID:8794See the combined annotation on chromosome 8 in Sequence Viewer

Public Note for CCDS 6037.1
This CCDS representation uses a downstream AUG start codon. This start codon has a strong Kozak signal and is restricted to human. An upstream start codon, which has a weak Kozak signal and is conserved in some other primates, is also present. The use of the upstream start codon would result in a protein that is 40 aa longer at the N-terminus. However, this would eliminate a signal peptide that is predicted for the shorter but not the longer N-terminus. PMID:9242611 shows experimental evidence for cleavage of a signal peptide following aa 25 from the downstream start, and this is also confirmed in PMID:15340161. Therefore, the downstream start codon is represented for this CCDS.

Public since: CCDS release 1, NCBI annotation release 35.1, Ensembl annotation release 23

Review status: Reviewed (by RefSeq, Havana and CCDS collaboration)


Attributes
CDS uses downstream AUG

Sequence IDs included in CCDS 6037.1

Original Current Source Nucleotide ID Protein ID MANE Status in CCDS Seq. Status Links
Original member Current member EBI ENST00000356864.4 ENSP00000349324.4 MANE Select Accepted alive Link to Ensembl Transcript Viewer:ENST00000356864.4Link to Ensembl Protein Viewer:ENSP00000349324.4Re-query CCDS DB by Nucleotide ID:ENST00000356864Re-query CCDS DB by Protein ID:ENSP00000349324
Original member Current member NCBI NM_003841.5 NP_003832.3 MANE Select Accepted alive Link to Nucleotide Sequence:NM_003841.5Link to Protein Sequence:NP_003832.3Re-query CCDS DB by Nucleotide ID:NM_003841Re-query CCDS DB by Protein ID:NP_003832Link to BLAST:NP_003832.3

RefSeq Length Related UniProtKB/SwissProt Length Identity Gaps Mismatches
NP_003832.3 259 O14798 259 100% 0 0

Chromosomal Locations for CCDS 6037.1

Assembly GRCh38.p14 (GCF_000001405.40)

On '+' strand of Chromosome 8 (NC_000008.11)
Genome Browser links: Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 8Link to Ensembl Genome Browser on chromosome 8See the combined annotation on chromosome 8 in Sequence Viewer

Chromosome Start Stop Links
8 23103122 23103181 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 8Link to Ensembl Genome Browser on chromosome 8
8 23111720 23111825 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 8Link to Ensembl Genome Browser on chromosome 8
8 23114657 23114770 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 8Link to Ensembl Genome Browser on chromosome 8
8 23115508 23115616 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 8Link to Ensembl Genome Browser on chromosome 8
8 23116641 23117031 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 8Link to Ensembl Genome Browser on chromosome 8

CCDS Sequence Data
Blue highlighting indicates alternating exons.
Red highlighting indicates amino acids encoded across a splice junction.
 
Mouse over the nucleotide or protein sequence below and click on the highlighted codon or residue to select the pair.

Nucleotide Sequence (780 nt):
ATGGCCCGGATCCCCAAGACCCTAAAGTTCGTCGTCGTCATCGTCGCGGTCCTGCTGCCAGTCCTAGCTT
ACTCTGCCACCACTGCCCGGCAGGAGGAAGTTCCCCAGCAGACAGTGGCCCCACAGCAACAGAGGCACAG
CTTCAAGGGGGAGGAGTGTCCAGCAGGATCTCATAGATCAGAACATACTGGAGCCTGTAACCCGTGCACA
GAGGGTGTGGATTACACCAACGCTTCCAACAATGAACCTTCTTGCTTCCCATGTACAGTTTGTAAATCAG
ATCAAAAACATAAAAGTTCCTGCACCATGACCAGAGACACAGTGTGTCAGTGTAAAGAAGGCACCTTCCG
GAATGAAAACTCCCCAGAGATGTGCCGGAAGTGTAGCAGGTGCCCTAGTGGGGAAGTCCAAGTCAGTAAT
TGTACGTCCTGGGATGATATCCAGTGTGTTGAAGAATTTGGTGCCAATGCCACTGTGGAAACCCCAGCTG
CTGAAGAGACAATGAACACCAGCCCGGGGACTCCTGCCCCAGCTGCTGAAGAGACAATGAACACCAGCCC
GGGGACTCCTGCCCCAGCTGCTGAAGAGACAATGACCACCAGCCCGGGGACTCCTGCCCCAGCTGCTGAA
GAGACAATGACCACCAGCCCGGGGACTCCTGCCCCAGCTGCTGAAGAGACAATGATCACCAGCCCGGGGA
CTCCTGCCTCTTCTCATTACCTCTCATGCACCATCGTAGGGATCATAGTTCTAATTGTGCTTCTGATTGT
GTTTGTTTGA

Translation (259 aa):
MARIPKTLKFVVVIVAVLLPVLAYSATTARQEEVPQQTVAPQQQRHSFKGEECPAGSHRSEHTGACNPCT
EGVDYTNASNNEPSCFPCTVCKSDQKHKSSCTMTRDTVCQCKEGTFRNENSPEMCRKCSRCPSGEVQVSN
CTSWDDIQCVEEFGANATVETPAAEETMNTSPGTPAPAAEETMNTSPGTPAPAAEETMTTSPGTPAPAAE
ETMTTSPGTPAPAAEETMITSPGTPASSHYLSCTIVGIIVLIVLLIVFV


Links Key
 Links to:   History report
  BLAST report
  Entrez Gene
  Nucleotide report
  Protein report
 Re-query CCDS DB by:   CCDS ID
  Gene ID
  Nucleotide ID
  Protein ID
 Genome Browser Links:   Ensembl Genome Browser
  NCBI Sequence Viewer
  UCSC Genome Browser
  VEGA Genome Browser

Disclaimer | Write to the Help Desk
NCBI | NLM | NIH