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Report for CCDS1612.1 (current version)

CCDS Status Species Chrom. Gene CCDS Release NCBI Annotation Release Ensembl Annotation Release Links
1612.1 Public Homo sapiens 1 LGALS8 24 110 108 CCDS HistoryNCBI Gene:3964Re-query CCDS DB by CCDS ID:1612.1Re-query CCDS DB by GeneID:3964See the combined annotation on chromosome 1 in Sequence Viewer

Public Note for CCDS 1612.1
This CCDS representation uses the 5'-most in-frame start codon, which is conserved in higher primates. An alternative downstream start codon, which is more widely conserved, also exists. It is possible that leaky scanning by ribosomes would allow the downstream start codon to be used, at least some of the time. The use of the downstream start codon would result in a protein that is 1 aa shorter at the N-terminus. There is no experimental evidence showing which start codon is preferentially used in vivo.

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

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

Sequence IDs included in CCDS 1612.1

Original Current Source Nucleotide ID Protein ID MANE Status in CCDS Seq. Status Links
Original member Current member EBI ENST00000341872.10 ENSP00000342139.6 Accepted alive Link to Ensembl Transcript Viewer:ENST00000341872.10Link to Ensembl Protein Viewer:ENSP00000342139.6Re-query CCDS DB by Nucleotide ID:ENST00000341872Re-query CCDS DB by Protein ID:ENSP00000342139
Original member Current member EBI ENST00000366584.9 ENSP00000355543.4 MANE Select Accepted alive Link to Ensembl Transcript Viewer:ENST00000366584.9Link to Ensembl Protein Viewer:ENSP00000355543.4Re-query CCDS DB by Nucleotide ID:ENST00000366584Re-query CCDS DB by Protein ID:ENSP00000355543
Original member Current member EBI ENST00000526634.5 ENSP00000437040.1 Accepted alive Link to Ensembl Transcript Viewer:ENST00000526634.5Link to Ensembl Protein Viewer:ENSP00000437040.1Re-query CCDS DB by Nucleotide ID:ENST00000526634Re-query CCDS DB by Protein ID:ENSP00000437040
Original member Current member NCBI NM_201543.4 NP_963837.1 Accepted alive Link to Nucleotide Sequence:NM_201543.4Link to Protein Sequence:NP_963837.1Re-query CCDS DB by Nucleotide ID:NM_201543Re-query CCDS DB by Protein ID:NP_963837Link to BLAST:NP_963837.1
Original member Current member NCBI NM_201544.4 NP_963838.1 MANE Select Accepted alive Link to Nucleotide Sequence:NM_201544.4Link to Protein Sequence:NP_963838.1Re-query CCDS DB by Nucleotide ID:NM_201544Re-query CCDS DB by Protein ID:NP_963838Link to BLAST:NP_963838.1

RefSeq Length Related UniProtKB/SwissProt Length Identity Gaps Mismatches
NP_963837.1 317 O00214-1 317 100% 0 0
NP_963838.1 317 O00214-1 317 100% 0 0

Chromosomal Locations for CCDS 1612.1

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 236526071 236526115 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 1Link to Ensembl Genome Browser on chromosome 1
1 236537497 236537585 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 1Link to Ensembl Genome Browser on chromosome 1
1 236538879 236539089 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 1Link to Ensembl Genome Browser on chromosome 1
1 236540564 236540683 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 1Link to Ensembl Genome Browser on chromosome 1
1 236541654 236541710 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 1Link to Ensembl Genome Browser on chromosome 1
1 236542761 236542787 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 1Link to Ensembl Genome Browser on chromosome 1
1 236543560 236543648 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 1Link to Ensembl Genome Browser on chromosome 1
1 236544750 236544915 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 1Link to Ensembl Genome Browser on chromosome 1
1 236548012 236548161 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 (954 nt):
ATGATGTTGTCCTTAAACAACCTACAGAATATCATCTATAACCCGGTAATCCCGTTTGTTGGCACCATTC
CTGATCAGCTGGATCCTGGAACTTTGATTGTGATACGTGGGCATGTTCCTAGTGACGCAGACAGATTCCA
GGTGGATCTGCAGAATGGCAGCAGCATGAAACCTCGAGCCGATGTGGCCTTTCATTTCAATCCTCGTTTC
AAAAGGGCCGGCTGCATTGTTTGCAATACTTTGATAAATGAAAAATGGGGACGGGAAGAGATCACCTATG
ACACGCCTTTCAAAAGAGAAAAGTCTTTTGAGATCGTGATTATGGTGCTGAAGGACAAATTCCAGGTGGC
TGTAAATGGAAAACATACTCTGCTCTATGGCCACAGGATCGGCCCAGAGAAAATAGACACTCTGGGCATT
TATGGCAAAGTGAATATTCACTCAATTGGTTTTAGCTTCAGCTCGGACTTACAAAGTACCCAAGCATCTA
GTCTGGAACTGACAGAGATAAGTAGAGAAAATGTTCCAAAGTCTGGCACGCCCCAGCTTAGGCTGCCATT
CGCTGCAAGGTTGAACACCCCCATGGGCCCTGGACGAACTGTCGTCGTTAAAGGAGAAGTGAATGCAAAT
GCCAAAAGCTTTAATGTTGACCTACTAGCAGGAAAATCAAAGGATATTGCTCTACACTTGAACCCACGCC
TGAATATTAAAGCATTTGTAAGAAATTCTTTTCTTCAGGAGTCCTGGGGAGAAGAAGAGAGAAATATTAC
CTCTTTCCCATTTAGTCCTGGGATGTACTTTGAGATGATAATTTATTGTGATGTTAGAGAATTCAAGGTT
GCAGTAAATGGCGTACACAGCCTGGAGTACAAACACAGATTTAAAGAGCTCAGCAGTATTGACACGCTGG
AAATTAATGGAGACATCCACTTACTGGAAGTAAGGAGCTGGTAG

Translation (317 aa):
MMLSLNNLQNIIYNPVIPFVGTIPDQLDPGTLIVIRGHVPSDADRFQVDLQNGSSMKPRADVAFHFNPRF
KRAGCIVCNTLINEKWGREEITYDTPFKREKSFEIVIMVLKDKFQVAVNGKHTLLYGHRIGPEKIDTLGI
YGKVNIHSIGFSFSSDLQSTQASSLELTEISRENVPKSGTPQLRLPFAARLNTPMGPGRTVVVKGEVNAN
AKSFNVDLLAGKSKDIALHLNPRLNIKAFVRNSFLQESWGEEERNITSFPFSPGMYFEMIIYCDVREFKV
AVNGVHSLEYKHRFKELSSIDTLEINGDIHLLEVRSW


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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