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Report for CCDS30161.2 (current version)

CCDS Status Species Chrom. Gene CCDS Release NCBI Annotation Release Ensembl Annotation Release Links
30161.2 Public Mus musculus X Sox3 23 108 98 CCDS HistoryNCBI Gene:20675Re-query CCDS DB by CCDS ID:30161.2Re-query CCDS DB by GeneID:20675See the combined annotation on chromosome X in Sequence Viewer

Public Note for CCDS 30161.1
The coding region has been updated to extend the N-terminus to one that is more supported by available conservation and orthologous transcript data. Northern blot analysis in PMID:8625802 also supports a longer (~2.3 kb) transcript in mouse.

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 30161.2

Original Current Source Nucleotide ID Protein ID Status in CCDS Seq. Status Links
Original member Current member EBI ENSMUST00000135107.3 ENSMUSP00000115237.2 Accepted alive Link to Ensembl Transcript Viewer:ENSMUST00000135107.3Link to Ensembl Protein Viewer:ENSMUSP00000115237.2Re-query CCDS DB by Nucleotide ID:ENSMUST00000135107Re-query CCDS DB by Protein ID:ENSMUSP00000115237
Original member NCBI NM_009237.2 NP_033263.2 Updated not alive Link to Nucleotide Sequence:NM_009237.2Link to Protein Sequence:NP_033263.2Re-query CCDS DB by Nucleotide ID:NM_009237Re-query CCDS DB by Protein ID:NP_033263
Current member NCBI NM_009237.3 NP_033263.2 Accepted alive Link to Nucleotide Sequence:NM_009237.3Link to Protein Sequence:NP_033263.2Re-query CCDS DB by Nucleotide ID:NM_009237Re-query CCDS DB by Protein ID:NP_033263Link to BLAST:NP_033263.2

Chromosomal Locations for CCDS 30161.2

Assembly GRCm38.p6 (GCF_000001635.26)

On '-' strand of Chromosome X (NC_000086.7)
Genome Browser links: Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome XLink to Ensembl Genome Browser on chromosome XSee the combined annotation on chromosome X in Sequence Viewer

Chromosome Start Stop Links
X 60892078 60893430 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome XLink to Ensembl Genome Browser on chromosome X

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 (1353 nt):
ATGCGACCAGCTCGAGAGAACGCATCAGGTGAGAGAAGCCCGCGAGTTCCCGCCGACTTTGCGCGGAGCC
CTTCGGCTAGCCTGCCCTTCCCGCCTGAGCTGCCGGCCCGCCGGCCCCTGAGCACCACTCCGACGGAGTC
CCCCGGCCTTTTCACGGTGGCCGCTCCAGCCCCCGGAGCGCCGTCTCCTCCCGCCACGCTGGCGCACCTC
CTTCCCGCCCCGGCGATGTACAGCCTGCTGGAGACTGAACTCAAGAACCCCGTGGGGCCGCCCACCCCAG
CCGCGGGCACCGGCGTCCCCGCAGCTCCCGGCGCTGCAGGCAAGAGTGGCGCGAACCCAGCCGGCGGAGC
GAACGCAGGCAACGGGGGCAGCGGGGGCGCGAACGGCGGCGGTGGTGGTGGTGGCGGCGGGGGCAGCGAC
CAGGACCGCGTCAAGCGACCCATGAACGCGTTCATGGTGTGGTCCCGCGGGCAGCGGCGCAAGATGGCCC
TGGAGAACCCCAAGATGCACAACTCCGAGATCAGCAAGCGCTTGGGCGCCGACTGGAAACTGCTGACCGA
TGCGGAGAAGCGGCCGTTCATCGACGAGGCCAAGCGACTGCGTGCGGTGCACATGAAGGAGTACCCGGAC
TACAAGTACCGGCCCCGCCGCAAGACCAAGACGCTGCTCAAGAAGGACAAGTACTCGCTGCCCGGCGGCC
TCCTGCCCCCGGGCGCCGCCGCAGCCGCCGCCGCTGCCGCCGCAGCCGCCGCCGCCAGCAGCCCGGTGGG
CGTGGGCCAGCGCCTGGACACGTACACGCACGTGAACGGCTGGGCCAACGGCGCCTACTCGCTCGTGCAG
GAGCAGCTGGGCTACGCGCAGCCCCCGAGCATGAGCAGCCCGCCGCCGCCACCCGCGCTGCCTCAGATGC
ACCGCTACGACATGGCCGGCCTGCAGTACAGCCCCATGATGCCACCCGGCGCCCAGAGCTACATGAACGC
CGCCGCCGCCGCTGCCGCCGCCTCGGGCTACGGGGGCATGGCGCCCTCCGCCGCGGCCGCCGCCGCCGCC
GCCTACGGGCAGCAGCCCGCCACCGCTGCCGCCGCGGCCGCCGCCGCCGCCGCCATGAGCCTGGGCCCCA
TGGGCTCCGTGGTGAAGTCGGAGCCCAGCTCTCCGCCGCCCGCCATCGCTTCGCACTCGCAGCGCGCGTG
CCTCGGCGACCTGCGCGACATGATCAGCATGTACCTGCCACCTGGCGGGGACGCGGCCGACGCCGCTTCT
CCGCTCCCAGGCGGCCGGCTGCACGGCGTGCACCAGCACTACCAGGGCGCCGGGACTGCGGTCAATGGAA
CGGTGCCGCTGACCCACATCTGA

Translation (450 aa):
MRPARENASGERSPRVPADFARSPSASLPFPPELPARRPLSTTPTESPGLFTVAAPAPGAPSPPATLAHL
LPAPAMYSLLETELKNPVGPPTPAAGTGVPAAPGAAGKSGANPAGGANAGNGGSGGANGGGGGGGGGGSD
QDRVKRPMNAFMVWSRGQRRKMALENPKMHNSEISKRLGADWKLLTDAEKRPFIDEAKRLRAVHMKEYPD
YKYRPRRKTKTLLKKDKYSLPGGLLPPGAAAAAAAAAAAAAASSPVGVGQRLDTYTHVNGWANGAYSLVQ
EQLGYAQPPSMSSPPPPPALPQMHRYDMAGLQYSPMMPPGAQSYMNAAAAAAAASGYGGMAPSAAAAAAA
AYGQQPATAAAAAAAAAAMSLGPMGSVVKSEPSSPPPAIASHSQRACLGDLRDMISMYLPPGGDAADAAS
PLPGGRLHGVHQHYQGAGTAVNGTVPLTHI


Links Key
 Links to:   History report
  BLAST report
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  Nucleotide report
  Protein report
 Re-query CCDS DB by:   CCDS ID
  Gene ID
  Nucleotide ID
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 Genome Browser Links:   Ensembl Genome Browser
  NCBI Sequence Viewer
  UCSC Genome Browser
  VEGA Genome Browser

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