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Report for CCDS19669.2 (current version)

CCDS Status Species Chrom. Gene CCDS Release NCBI Annotation Release Ensembl Annotation Release Links
19669.2 Reviewed, update pending Mus musculus 5 Hcar1 23 108 98 CCDS HistoryNCBI Gene:243270Re-query CCDS DB by CCDS ID:19669.2See the combined annotation on chromosome 5 in Sequence Viewer

Public Note for CCDS 19669.2
The coding region has been updated to extend the N-terminus. The use of an alternative upstream start codon, which appears to be rodent-specific, would result in a protein that is 8 aa longer at the N-terminal. The better conserved downstream AUG has a stronger Kozak signal than the uAUG, so it is possible that the downstream AUG may sometimes be used due to leaky scanning. No experimental evidence exists to show which AUG 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)


Attributes
CDS uses downstream AUG

Sequence IDs included in CCDS 19669.2

Original Current Source Nucleotide ID Protein ID Status in CCDS Seq. Status Links
Original member Current member EBI ENSMUST00000164267.1 ENSMUSP00000129280.1 Accepted alive Link to Ensembl Transcript Viewer:ENSMUST00000164267.1Link to Ensembl Protein Viewer:ENSMUSP00000129280.1Re-query CCDS DB by Nucleotide ID:ENSMUST00000164267Re-query CCDS DB by Protein ID:ENSMUSP00000129280
Original member NCBI NM_175520.4 NP_780729.2 Updated not alive Link to Nucleotide Sequence:NM_175520.4Link to Protein Sequence:NP_780729.2Re-query CCDS DB by Nucleotide ID:NM_175520Re-query CCDS DB by Protein ID:NP_780729
Current member NCBI NM_175520.5 NP_780729.3 Pending alive Link to Nucleotide Sequence:NM_175520.5Link to Protein Sequence:NP_780729.3Re-query CCDS DB by Nucleotide ID:NM_175520Re-query CCDS DB by Protein ID:NP_780729Link to BLAST:NP_780729.3

RefSeq Length Related UniProtKB/SwissProt Length Identity Gaps Mismatches
NP_780729.3 343 Q8C131 343 100% 0 0

Chromosomal Locations for CCDS 19669.2

Assembly GRCm38.p6 (GCF_000001635.26)

On '-' strand of Chromosome 5 (NC_000071.6)
Genome Browser links: Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 5Link to Ensembl Genome Browser on chromosome 5See the combined annotation on chromosome 5 in Sequence Viewer

Chromosome Start Stop Links
5 123878571 123879626 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 5Link to Ensembl Genome Browser on chromosome 5

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 (1056 nt):
ATGCCAGTCCTCTCTCCAACTGCTATGGACAACGGGTCGTGCTGTCTCATCGAGGGGGAGCCCATCTCCC
AAGTGATGCCTCCTCTACTCATCCTGGTCTTCGTGCTTGGCGCCCTGGGCAACGGCATAGCCCTGTGCGG
CTTCTGCTTTCACATGAAGACCTGGAAGTCAAGCACTATTTACCTTTTCAACTTGGCTGTGGCCGATTTT
CTCCTCATGATCTGCTTACCCCTTCGGACAGACTACTACCTCAGACGCAGACACTGGATTTTTGGAGATA
TCGCCTGTCGCCTGGTCCTCTTCAAGCTGGCCATGAATAGGGCCGGGAGCATTGTCTTCCTCACTGTGGT
GGCTGTGGATAGGTATTTCAAAGTGGTCCACCCCCACCATATGGTGAATGCCATCTCCAACCGGACTGCC
GCCGCCACCGCCTGTGTCCTCTGGACTTTGGTCATCTTGGGGACTGTGTATCTTCTGATGGAGAGTCACC
TGTGTGTGCAGGGGACACTGTCGTCCTGTGAGAGCTTCATCATGGAGTCAGCCAACGGGTGGCACGATGT
CATGTTCCAGCTGGAGTTCTTCCTGCCCCTGACAATCATCTTGTTCTGCTCGGTCAACGTTGTTTGGAGC
CTGAGACGGAGGCAGCAGCTGACCAGACAGGCTCGGATGAGGAGGGCCACCCGGTTCATCATGGTGGTGG
CTTCTGTGTTCATCACGTGTTACCTGCCCAGCGTGCTGGCTAGGCTCTACTTCCTCTGGACGGTGCCCAC
TAGTGCCTGTGACCCCTCTGTCCACACAGCCCTCCACGTCACCCTGAGCTTCACCTACCTGAACAGTATG
CTGGATCCCCTTGTATATTACTTCTCAAGCCCCTCGCTCCCCAAATTCTACACCAAGCTCACAATCTGCA
GCCTGAAGCCCAAACGCCCAGGACGCACGAAGACGCGGAGGTCAGAAGAGATGCCAATTTCGAACCTCTG
CAGTAAGAGCTCCATCGATGGGGCAAATCGTTCCCAGAGGCCATCTGACGGGCAGTGGGATCTCCAAGTG
TGTTGA

Translation (351 aa):
MPVLSPTAMDNGSCCLIEGEPISQVMPPLLILVFVLGALGNGIALCGFCFHMKTWKSSTIYLFNLAVADF
LLMICLPLRTDYYLRRRHWIFGDIACRLVLFKLAMNRAGSIVFLTVVAVDRYFKVVHPHHMVNAISNRTA
AATACVLWTLVILGTVYLLMESHLCVQGTLSSCESFIMESANGWHDVMFQLEFFLPLTIILFCSVNVVWS
LRRRQQLTRQARMRRATRFIMVVASVFITCYLPSVLARLYFLWTVPTSACDPSVHTALHVTLSFTYLNSM
LDPLVYYFSSPSLPKFYTKLTICSLKPKRPGRTKTRRSEEMPISNLCSKSSIDGANRSQRPSDGQWDLQV
C


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
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