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Report for CCDS27544.1 (current version)

CCDS Status Species Chrom. Gene CCDS Release NCBI Annotation Release Ensembl Annotation Release Links
27544.1 Public Mus musculus 15 Ly6h 23 108 98 CCDS HistoryNCBI Gene:23934Re-query CCDS DB by CCDS ID:27544.1Re-query CCDS DB by GeneID:23934See the combined annotation on chromosome 15 in Sequence Viewer

Public Note for CCDS 27544.1
This CCDS represents the longer Ly6h isoform and is based on the 5' splice pattern of AK021002.1, BC028758.1 and AF127091.1. The 5'-most AUG is selected as the translation initiation codon, but a downstream AUG with a stronger Kozak signal also exists, and may also be used by this transcript. Use of the downstream start codon would result in a protein that is 21 aa shorter at the N-terminus. The downstream start codon is also used by alternative 5' end variants, as in the mRNA AK034884.1 and the ESTs BM943584.1, CX238172.1 and BY253811.1.

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 27544.1

Original Current Source Nucleotide ID Protein ID Status in CCDS Seq. Status Links
Original member Current member EBI ENSMUST00000127095.7 ENSMUSP00000122061.1 Accepted alive Link to Ensembl Transcript Viewer:ENSMUST00000127095.7Link to Ensembl Protein Viewer:ENSMUSP00000122061.1Re-query CCDS DB by Nucleotide ID:ENSMUST00000127095Re-query CCDS DB by Protein ID:ENSMUSP00000122061
Original member Current member EBI ENSMUST00000156032.1 ENSMUSP00000122878.1 Accepted alive Link to Ensembl Transcript Viewer:ENSMUST00000156032.1Link to Ensembl Protein Viewer:ENSMUSP00000122878.1Re-query CCDS DB by Nucleotide ID:ENSMUST00000156032Re-query CCDS DB by Protein ID:ENSMUSP00000122878
Original member NCBI NM_011837.3 NP_035967.1 Updated not alive Link to Nucleotide Sequence:NM_011837.3Link to Protein Sequence:NP_035967.1Re-query CCDS DB by Nucleotide ID:NM_011837Re-query CCDS DB by Protein ID:NP_035967
Current member NCBI NM_011837.4 NP_035967.1 Accepted alive Link to Nucleotide Sequence:NM_011837.4Link to Protein Sequence:NP_035967.1Re-query CCDS DB by Nucleotide ID:NM_011837Re-query CCDS DB by Protein ID:NP_035967Link to BLAST:NP_035967.1

Chromosomal Locations for CCDS 27544.1

Assembly GRCm38.p6 (GCF_000001635.26)

On '-' strand of Chromosome 15 (NC_000081.6)
Genome Browser links: Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 15Link to Ensembl Genome Browser on chromosome 15See the combined annotation on chromosome 15 in Sequence Viewer

Chromosome Start Stop Links
15 75565106 75565341 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 15Link to Ensembl Genome Browser on chromosome 15
15 75565583 75565699 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 15Link to Ensembl Genome Browser on chromosome 15
15 75566132 75566259 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 15Link to Ensembl Genome Browser on chromosome 15
15 75566763 75566764 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 15Link to Ensembl Genome Browser on chromosome 15

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 (483 nt):
ATGCCTGCGCCCCAGAGGACCCCCGCCTGCAGCCCCCGCGCCTCTTTCAGGCCCTATCGGAGCATGCTGC
CTGCAGCCATGAAGAGCCTCGGTCTGGCGCTGCTGGCCTTGCTTCTCTGCCCCTCGCCGGCCCATGGCCT
GTGGTGCCAGGACTGCACCCTGGCCAATTCCAGCCATTGCGCTCCGAAGCAGTGCCAGCCCACCGATACC
GTTTGTGCCAGCGTGCGGATCACCGACCCCAGCAGCAGCAGGAAGGATCATTCTGTGAACAAGATGTGTG
CTTCCTCCTGCGACTTCGTTAAGCGGCACTTTTTCTCAGACTATCTGATGGGGTTCATTAACTCTGGGAT
CTTAAAAGTCGACGTGGACTGCTGCGAGAAAGATTTGTGCAACGGGGCATCGGTCGCAGGACGCAGCCCC
TGGGCCCTGGCTGGGGGGCTCCTGCTCAGCCTGGGGCCTGCTCTTCTCTGGGCTGGGCCCTAA

Translation (160 aa):
MPAPQRTPACSPRASFRPYRSMLPAAMKSLGLALLALLLCPSPAHGLWCQDCTLANSSHCAPKQCQPTDT
VCASVRITDPSSSRKDHSVNKMCASSCDFVKRHFFSDYLMGFINSGILKVDVDCCEKDLCNGASVAGRSP
WALAGGLLLSLGPALLWAGP


Links Key
 Links to:   History report
  BLAST report
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  Nucleotide 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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