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Report for CCDS20530.2 (current version)

CCDS Status Species Chrom. Gene CCDS Release NCBI Annotation Release Ensembl Annotation Release Links
20530.2 Reviewed, update pending Mus musculus 6 Tpi1 23 108 98 CCDS HistoryNCBI Gene:21991Re-query CCDS DB by CCDS ID:20530.2See the combined annotation on chromosome 6 in Sequence Viewer

Public Note for CCDS 20530.2
The coding region has been updated to extend the N-terminus to one that is more supported by the available transcript data. The 5'-most translation start codon, which appears to be mouse-specific, is used in the updated sequence. An alternative downstream start codon, which is well-conserved, is also present, and it would result in a protein that is 13 aa shorter at the N-terminus. The 5'-most start codon has a weak Kozak signal, so it is possible that ribosomal leaky scanning may sometimes allow the downstream start codon to be used. There is no experimental evidence indicating which start codon is preferentially used in vivo.

Public since: CCDS release 2, NCBI annotation release 36.1, Ensembl annotation release 39

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

Sequence IDs included in CCDS 20530.2

Original Current Source Nucleotide ID Protein ID Status in CCDS Seq. Status Links
Original member Current member EBI ENSMUST00000172132.8 ENSMUSP00000130858.2 Accepted alive Link to Ensembl Transcript Viewer:ENSMUST00000172132.8Link to Ensembl Protein Viewer:ENSMUSP00000130858.2Re-query CCDS DB by Nucleotide ID:ENSMUST00000172132Re-query CCDS DB by Protein ID:ENSMUSP00000130858
Original member NCBI NM_009415.2 NP_033441.2 Updated not alive Link to Nucleotide Sequence:NM_009415.2Link to Protein Sequence:NP_033441.2Re-query CCDS DB by Nucleotide ID:NM_009415Re-query CCDS DB by Protein ID:NP_033441
Current member NCBI NM_009415.3 NP_033441.3 Pending alive Link to Nucleotide Sequence:NM_009415.3Link to Protein Sequence:NP_033441.3Re-query CCDS DB by Nucleotide ID:NM_009415Re-query CCDS DB by Protein ID:NP_033441Link to BLAST:NP_033441.3

RefSeq Length Related UniProtKB/SwissProt Length Identity Gaps Mismatches
NP_033441.3 249 P17751-1 249 100% 0 0

Chromosomal Locations for CCDS 20530.2

Assembly GRCm38.p6 (GCF_000001635.26)

On '-' strand of Chromosome 6 (NC_000072.6)
Genome Browser links: Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 6Link to Ensembl Genome Browser on chromosome 6See the combined annotation on chromosome 6 in Sequence Viewer

Chromosome Start Stop Links
6 124811269 124811387 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 6Link to Ensembl Genome Browser on chromosome 6
6 124811517 124811604 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 6Link to Ensembl Genome Browser on chromosome 6
6 124811882 124811967 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 6Link to Ensembl Genome Browser on chromosome 6
6 124812404 124812536 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 6Link to Ensembl Genome Browser on chromosome 6
6 124812621 124812705 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 6Link to Ensembl Genome Browser on chromosome 6
6 124812790 124812913 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 6Link to Ensembl Genome Browser on chromosome 6
6 124814008 124814272 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 6Link to Ensembl Genome Browser on chromosome 6

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 (900 nt):
ATGGAGGGGAAGGCGGAGCAGCAAGGGGCCGGGCTAACCATGGCGGAGGGCGGGGAGAAGGAGGAGTTCT
GCTTCACAGCCATCTATATAAGTGGCCAGTGGAGAGAGCCGTGCGTTTGTACTGACCTTCAGAGACTTGA
GCCTGGTACAATGGCGCCTACCAGGAAGTTCTTCGTTGGGGGCAACTGGAAGATGAACGGGAGGAAGAAG
TGCCTGGGAGAACTCATCTGCACCCTGAACGCAGCCAACGTGCCGGCAGGCACCGAGGTGGTTTGTGCAC
CGCCCACCGCTTACATCGACTTTGCCAGACAGAAGCTGGATCCCAAAATTGCTGTGGCCGCACAGAACTG
CTACAAAGTGACCAATGGGGCCTTCACTGGGGAAATCAGCCCTGGCATGATCAAAGACTTAGGAGCCACC
TGGGTCGTGCTGGGGCACTCAGAAAGAAGACATGTCTTTGGAGAATCAGATGAGCTGATTGGCCAGAAAG
TGAGCCACGCCCTAGCAGAGGGACTCGGGGTGATCGCCTGCATCGGGGAGAAGCTAGACGAAAGGGAAGC
CGGCATCACCGAGAAGGTCGTGTTCGAGCAAACCAAGGTCATCGCAGATAATGTGAAAGACTGGAGCAAG
GTGGTCCTGGCCTATGAACCTGTGTGGGCCATTGGGACTGGCAAGACGGCAACCCCTCAGCAGGCACAGG
AAGTACACGAGAAGCTCCGGGGATGGCTGAAATCCAATGTCAATGATGGGGTGGCTCAGAGCACCCGGAT
CATTTATGGAGGTTCTGTGACTGGAGCAACCTGCAAAGAGCTGGCAAGCCAGCCTGACGTGGACGGCTTC
CTTGTGGGTGGCGCATCTCTCAAGCCTGAATTTGTGGACATCATCAATGCCAAACAATGA

Translation (299 aa):
MEGKAEQQGAGLTMAEGGEKEEFCFTAIYISGQWREPCVCTDLQRLEPGTMAPTRKFFVGGNWKMNGRKK
CLGELICTLNAANVPAGTEVVCAPPTAYIDFARQKLDPKIAVAAQNCYKVTNGAFTGEISPGMIKDLGAT
WVVLGHSERRHVFGESDELIGQKVSHALAEGLGVIACIGEKLDEREAGITEKVVFEQTKVIADNVKDWSK
VVLAYEPVWAIGTGKTATPQQAQEVHEKLRGWLKSNVNDGVAQSTRIIYGGSVTGATCKELASQPDVDGF
LVGGASLKPEFVDIINAKQ


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 Genome Browser Links:   Ensembl Genome Browser
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