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Report for CCDS23871.2 (current version)

CCDS Status Species Chrom. Gene CCDS Release NCBI Annotation Release Ensembl Annotation Release Links
23871.2 Reviewed, update pending Mus musculus 10 Chst3 23 108 98 CCDS HistoryNCBI Gene:53374Re-query CCDS DB by CCDS ID:23871.2Re-query CCDS DB by GeneID:53374See the combined annotation on chromosome 10 in Sequence Viewer

Public Note for CCDS 23871.1
The coding region has been updated to extend the N-terminus to one that is more supported by the available transcript data. This N-terminal extension is only conserved in a few species, including mouse, rat, rhesus and marmoset. The updated start codon has a weak Kozak signal, as does the much better conserved downstream start codon. It is possible that leaky scanning by ribosomes may allow the downstream start codon to be used at least some of the time, which would result in a 6 aa length difference at the N-terminus. 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 CCDS collaboration)


Attributes
CDS uses downstream AUG

Sequence IDs included in CCDS 23871.2

Original Current Source Nucleotide ID Protein ID Status in CCDS Seq. Status Links
Original member Current member EBI ENSMUST00000135158.8 ENSMUSP00000126281.1 Accepted alive Link to Ensembl Transcript Viewer:ENSMUST00000135158.8Link to Ensembl Protein Viewer:ENSMUSP00000126281.1Re-query CCDS DB by Nucleotide ID:ENSMUST00000135158Re-query CCDS DB by Protein ID:ENSMUSP00000126281
Original member NCBI NM_016803.3 NP_058083.2 Updated not alive Link to Nucleotide Sequence:NM_016803.3Link to Protein Sequence:NP_058083.2Re-query CCDS DB by Nucleotide ID:NM_016803Re-query CCDS DB by Protein ID:NP_058083
Current member NCBI NM_016803.4 NP_058083.3 Pending alive Link to Nucleotide Sequence:NM_016803.4Link to Protein Sequence:NP_058083.3Re-query CCDS DB by Nucleotide ID:NM_016803Re-query CCDS DB by Protein ID:NP_058083Link to BLAST:NP_058083.3

RefSeq Length Related UniProtKB/SwissProt Length Identity Gaps Mismatches
NP_058083.3 472 O88199 472 100% 0 0

Chromosomal Locations for CCDS 23871.2

Assembly GRCm38.p6 (GCF_000001635.26)

On '-' strand of Chromosome 10 (NC_000076.6)
Genome Browser links: Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 10Link to Ensembl Genome Browser on chromosome 10See the combined annotation on chromosome 10 in Sequence Viewer

Chromosome Start Stop Links
10 60185605 60186883 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 10Link to Ensembl Genome Browser on chromosome 10
10 60188073 60188230 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 10Link to Ensembl Genome Browser on chromosome 10

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 (1437 nt):
ATGGCGCCCCCTCTCCCCATGGAGAAAGGACTCGCTTTGCCTCAGGATTTCCGGGACCTTGTACACAGCC
TAAAGATTCGAGGCAGATACGTCTTGTTCCTGGCATTTGTGGTCATAGTTTTTATCTTCATTGAAAAGGA
AAATAAAATCATATCCAGGGTCTCCGACAAGCTGAAGCAGATCCCTCATTTTGTGGCAGATGCCAACAGC
ACTGACCCAGCCCTGCTCTTATCGGAGAATGCATCTCTCTTGTCCCTGAGCGAGTTGGATTCCACCTTTT
CCCATCTGCGGAGCCGCCTGCACAACCTGAGCCTGCAGCTGGGCGTGGAGCCAGCAATGGAGAGCCAGGA
GGCTGGGGCAGAGAAGCCATCCCAGCAGGCTGGAGCAGGGACCCGGCGCCACGTGCTTCTCATGGCCACC
ACCCGCACGGGTTCCTCGTTCGTGGGCGAGTTCTTCAACCAGCAGGGCAATATCTTCTACCTCTTCGAGC
CACTGTGGCACATCGAGCGCACCGTGTTCTTCCAGCAGCGAGGCGCCAGCGCGGCTGGTTCAGCCTTGGT
CTACCGTGATGTCCTCAAGCAGTTGTTGCTATGCGACCTGTATGTGCTGGAGCCCTTCATCAGCCCTCCG
CCCGAGGACCACTTGACTCAGTTCCTGTTCCGCCGGGGATCCAGCCGTTCACTCTGCGAGGATCCGGTGT
GCACACCCTTCGTCAAGAAGGTCTTTGAGAAGTACCACTGCAGGAACCGTCGCTGCGGGCCACTCAACGT
GACCTTGGCGGGCGAGGCCTGCCGCCGCAAGGACCACGTGGCCCTCAAGGCTGTGCGCATCCGTCAGCTG
GAGTTCCTGCAGCCGCTAGTTGAGGACCCGAGGTTGGATCTACGAGTCATTCAGCTGGTGCGCGACCCCC
GGGCCGTGCTGGCTTCACGCATAGTGGCCTTTGCGGGCAAGTATGAGAACTGGAAGAAGTGGCTGTCCGA
GGGGCAGGACCAGCTGAGCGAGGATGAGGTGCAGCGATTGCGGGGCAACTGTGAGAGCATCCGCCTGTCT
GCAGAGCTGGGCTTGCGGCAGCCAGCCTGGCTGCGCGGTCGTTACATGCTGGTGCGCTATGAGGATGTGG
CACGCAGGCCACTGCAGAAGGCCCGAGAGATGTACAGCTTTGCGGGCATCCCCTTGACCCCGCAGGTGGA
GGACTGGATCCAGAAGAACACGCAGGCGACACGCGACAGCAGCGATGTCTACTCCACTCAGAAAAACTCT
TCTGAGCAGTTTGAGAAGTGGCGCTTCAGCATGCCTTTCAAGCTGGCACAGGTGGTACAGGCTGCCTGTG
GCCCGACCATGCACCTCTTTGGCTACAAGTTGGCCAGGGATGCCGCCTCACTCACCAACCGCTCCATCAG
CCTGCTGGAGGAGCGGGGCACCTTCTGGGTCACGTAG

Translation (478 aa):
MAPPLPMEKGLALPQDFRDLVHSLKIRGRYVLFLAFVVIVFIFIEKENKIISRVSDKLKQIPHFVADANS
TDPALLLSENASLLSLSELDSTFSHLRSRLHNLSLQLGVEPAMESQEAGAEKPSQQAGAGTRRHVLLMAT
TRTGSSFVGEFFNQQGNIFYLFEPLWHIERTVFFQQRGASAAGSALVYRDVLKQLLLCDLYVLEPFISPP
PEDHLTQFLFRRGSSRSLCEDPVCTPFVKKVFEKYHCRNRRCGPLNVTLAGEACRRKDHVALKAVRIRQL
EFLQPLVEDPRLDLRVIQLVRDPRAVLASRIVAFAGKYENWKKWLSEGQDQLSEDEVQRLRGNCESIRLS
AELGLRQPAWLRGRYMLVRYEDVARRPLQKAREMYSFAGIPLTPQVEDWIQKNTQATRDSSDVYSTQKNS
SEQFEKWRFSMPFKLAQVVQAACGPTMHLFGYKLARDAASLTNRSISLLEERGTFWVT


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 Genome Browser Links:   Ensembl Genome Browser
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