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Report for CCDS871.1 (current version)

CCDS Status Species Chrom. Gene CCDS Release NCBI Annotation Release Ensembl Annotation Release Links
871.1 Public Homo sapiens 1 SYT6 24 110 108 CCDS HistoryNCBI Gene:148281Re-query CCDS DB by CCDS ID:871.1Re-query CCDS DB by GeneID:148281See the combined annotation on chromosome 1 in Sequence Viewer

Public Note for CCDS 871.1
This CCDS ID represents the protein described in PMIDs: 11437455 and 16111671. This variant is supported by AK056448.1. It should be noted this transcript is predicted to undergo nonsense-mediated mRNA decay (NMD). However, the protein is represented because it was detected endogenously in PMID: 11437455. It is likely that the majority of transcripts representing this variant will undergo NMD, while some low level of NMD escape may allow for the expression of this protein.

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

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


Attributes
Nonsense-mediated decay (NMD) candidate

Sequence IDs included in CCDS 871.1

Original Current Source Nucleotide ID Protein ID MANE Status in CCDS Seq. Status Links
Original member Current member EBI ENST00000607941.5 ENSP00000476507.1 Accepted alive Link to Ensembl Transcript Viewer:ENST00000607941.5Link to Ensembl Protein Viewer:ENSP00000476507.1Re-query CCDS DB by Nucleotide ID:ENST00000607941Re-query CCDS DB by Protein ID:ENSP00000476507
Original member Current member EBI ENST00000609117.5 ENSP00000477344.1 Accepted alive Link to Ensembl Transcript Viewer:ENST00000609117.5Link to Ensembl Protein Viewer:ENSP00000477344.1Re-query CCDS DB by Nucleotide ID:ENST00000609117Re-query CCDS DB by Protein ID:ENSP00000477344
Original member Current member NCBI NM_001270805.2 NP_001257734.1 Accepted alive Link to Nucleotide Sequence:NM_001270805.2Link to Protein Sequence:NP_001257734.1Re-query CCDS DB by Nucleotide ID:NM_001270805Re-query CCDS DB by Protein ID:NP_001257734Link to BLAST:NP_001257734.1
Original member Current member NCBI NM_001366223.1 NP_001353152.1 Accepted alive Link to Nucleotide Sequence:NM_001366223.1Link to Protein Sequence:NP_001353152.1Re-query CCDS DB by Nucleotide ID:NM_001366223Re-query CCDS DB by Protein ID:NP_001353152Link to BLAST:NP_001353152.1
Original member Current member NCBI NM_205848.4 NP_995320.1 Accepted alive Link to Nucleotide Sequence:NM_205848.4Link to Protein Sequence:NP_995320.1Re-query CCDS DB by Nucleotide ID:NM_205848Re-query CCDS DB by Protein ID:NP_995320Link to BLAST:NP_995320.1

RefSeq Length Related UniProtKB/SwissProt Length Identity Gaps Mismatches
NP_001257734.1 425 Q5T7P8-2 425 100% 0 0
NP_001353152.1 425 Q5T7P8-2 425 100% 0 0
NP_995320.1 425 Q5T7P8-2 425 100% 0 0

Chromosomal Locations for CCDS 871.1

Assembly GRCh38.p14 (GCF_000001405.40)

On '-' strand of Chromosome 1 (NC_000001.11)
Genome Browser links: Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 1Link to Ensembl Genome Browser on chromosome 1See the combined annotation on chromosome 1 in Sequence Viewer

Chromosome Start Stop Links
1 114093786 114093803 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 1Link to Ensembl Genome Browser on chromosome 1
1 114097727 114097877 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 1Link to Ensembl Genome Browser on chromosome 1
1 114099094 114099265 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 1Link to Ensembl Genome Browser on chromosome 1
1 114103601 114103721 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 1Link to Ensembl Genome Browser on chromosome 1
1 114137495 114138053 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 1Link to Ensembl Genome Browser on chromosome 1
1 114139615 114139871 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 1Link to Ensembl Genome Browser on chromosome 1

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 (1278 nt):
ATGCCCTGGAGGAACAAGGAGGCCTCCAGTCCCTCTTCTGCTAATCCCCCCTTGGAAGCCCTCCAGAGCC
CCAGCTTCAGAGGCAACATGGCGGACAAGCTGAAGGACCCCAGCACCCTGGGCTTCCTGGAGGCGGCCGT
GAAGATCAGCCACACGTCCCCAGATATCCCAGCTGAGGTGCAGATGTCGGTCAAGGAGCACATCATGCGT
CACACCCGGCTGCAGCGGCAAACTACAGAGCCAGCGTCATCCACCAGGCACACGTCCTTCAAGCGCCACC
TGCCAAGGCAGATGCATGTCTCCAGTGTAGACTATGGCAATGAGCTTCCACCAGCAGCAGAGCAGCCCAC
CAGCATTGGCCGCATCAAGCCTGAGCTCTACAAGCAGAAGTCGGTGGATGGGGAGGATGCCAAGTCTGAG
GCCACCAAGAGCTGCGGGAAGATCAACTTCAGCCTACGCTACGATTACGAGACCGAGACCCTGATTGTGC
GTATCCTGAAGGCTTTTGACCTCCCTGCCAAGGACTTTTGTGGAAGCTCTGACCCTTATGTCAAGATCTA
CCTCCTGCCTGACCGCAAATGCAAGCTGCAGACCCGGGTGCACCGCAAGACCCTGAACCCCACCTTTGAT
GAGAACTTCCACTTCCCTGTGCCCTATGAGGAGCTGGCTGACCGCAAGCTGCATCTCAGTGTCTTCGACT
TTGACCGCTTCTCCCGCCATGACATGATTGGCGAGGTCATCCTGGACAACCTCTTTGAGGCCTCTGACCT
GTCTCGGGAAACCTCCATCTGGAAGGATATCCAATATGCCACAAGTGAAAGCGTGGACTTGGGAGAGATC
ATGTTCTCCCTTTGCTACCTGCCCACTGCAGGCAGGCTCACCCTCACAGTGATTAAGTGTCGGAACCTCA
AGGCGATGGACATCACAGGCTATTCAGATCCCTATGTGAAAGTGTCCTTGCTCTGTGATGGGCGGAGGCT
GAAGAAGAAGAAAACAACCATAAAGAAAAACACTCTCAATCCTGTCTACAATGAGGCCATCATCTTTGAC
ATTCCCCCGGAAAACATGGATCAAGTCAGCCTGCTCATCTCAGTCATGGACTATGATCGAGTGGGCCACA
ATGAGATCATAGGAGTCTGTCGTGTGGGGATCACTGCTGAAGGCCTGGGCAGGGACCACTGGAACGAGAT
GCTGGCATACCCCCGGAAGCCCATCGCACACTGGCACTCCTTGGTGGAGGTAAAGAAATCCTTCAAAGAG
GGAAACCCTCGGTTGTGA

Translation (425 aa):
MPWRNKEASSPSSANPPLEALQSPSFRGNMADKLKDPSTLGFLEAAVKISHTSPDIPAEVQMSVKEHIMR
HTRLQRQTTEPASSTRHTSFKRHLPRQMHVSSVDYGNELPPAAEQPTSIGRIKPELYKQKSVDGEDAKSE
ATKSCGKINFSLRYDYETETLIVRILKAFDLPAKDFCGSSDPYVKIYLLPDRKCKLQTRVHRKTLNPTFD
ENFHFPVPYEELADRKLHLSVFDFDRFSRHDMIGEVILDNLFEASDLSRETSIWKDIQYATSESVDLGEI
MFSLCYLPTAGRLTLTVIKCRNLKAMDITGYSDPYVKVSLLCDGRRLKKKKTTIKKNTLNPVYNEAIIFD
IPPENMDQVSLLISVMDYDRVGHNEIIGVCRVGITAEGLGRDHWNEMLAYPRKPIAHWHSLVEVKKSFKE
GNPRL


Links Key
 Links to:   History report
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 Re-query CCDS DB by:   CCDS ID
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 Genome Browser Links:   Ensembl Genome Browser
  NCBI Sequence Viewer
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