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Report for CCDS25774.2 (current version)

CCDS Status Species Chrom. Gene CCDS Release NCBI Annotation Release Ensembl Annotation Release Links
25774.2 Reviewed, update pending Mus musculus 11 Rab40b 23 108 98 CCDS HistoryNCBI Gene:217371Re-query CCDS DB by CCDS ID:25774.2See the combined annotation on chromosome 11 in Sequence Viewer

Public Note for CCDS 25774.2
The coding region has been updated to extend the N-terminus to one that is more supported by the available transcript data. The updated start codon is only conserved in mouse and rat, and it has a weak Kozak signal. It is possible that ribosomal leaky scanning may allow the better conserved downstream start codon to be used some of the time. 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 RefSeq, Havana and CCDS collaboration)


Attributes
CDS uses downstream AUG

Sequence IDs included in CCDS 25774.2

Original Current Source Nucleotide ID Protein ID Status in CCDS Seq. Status Links
Original member Current member EBI ENSMUST00000106107.2 ENSMUSP00000101713.2 Accepted alive Link to Ensembl Transcript Viewer:ENSMUST00000106107.2Link to Ensembl Protein Viewer:ENSMUSP00000101713.2Re-query CCDS DB by Nucleotide ID:ENSMUST00000106107Re-query CCDS DB by Protein ID:ENSMUSP00000101713
Original member NCBI NM_139147.3 NP_631886.2 Updated not alive Link to Nucleotide Sequence:NM_139147.3Link to Protein Sequence:NP_631886.2Re-query CCDS DB by Nucleotide ID:NM_139147Re-query CCDS DB by Protein ID:NP_631886
Current member NCBI NM_139147.4 NP_631886.3 Pending alive Link to Nucleotide Sequence:NM_139147.4Link to Protein Sequence:NP_631886.3Re-query CCDS DB by Nucleotide ID:NM_139147Re-query CCDS DB by Protein ID:NP_631886Link to BLAST:NP_631886.3

RefSeq Length Related UniProtKB/SwissProt Length Identity Gaps Mismatches
NP_631886.3 278 Q8VHP8 278 100% 0 0

Chromosomal Locations for CCDS 25774.2

Assembly GRCm38.p6 (GCF_000001635.26)

On '-' strand of Chromosome 11 (NC_000077.6)
Genome Browser links: Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 11Link to Ensembl Genome Browser on chromosome 11See the combined annotation on chromosome 11 in Sequence Viewer

Chromosome Start Stop Links
11 121357037 121357308 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 11Link to Ensembl Genome Browser on chromosome 11
11 121357860 121358082 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 11Link to Ensembl Genome Browser on chromosome 11
11 121358775 121358852 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 11Link to Ensembl Genome Browser on chromosome 11
11 121359560 121359620 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 11Link to Ensembl Genome Browser on chromosome 11
11 121363504 121363564 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 11Link to Ensembl Genome Browser on chromosome 11
11 121387998 121388142 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 11Link to Ensembl Genome Browser on chromosome 11

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 (840 nt):
ATGATGAGCTCCCTGGGCAGCCCGGTGCGGGCCTACGATTTTCTACTTAAGTTCCTGTTGGTGGGCGACA
GCGACGTGGGCAAGGGAGAGATCCTGGCCAGCTTGCAGGACGGAGCAGCCGAGTCTCCTTACGGCCACCC
GGCGGGAATTGATCACAAGACGACCACCATCCTGCTAGATGGCCGAAGGGTGAAACTGCAGCTTTGGGAC
ACCTCGGGGCAGGGGAGATTTTGTACCATATTCCGCTCATACTCCAGAGGTGCACAGGGTGTGGTCCTGG
TCTATGACATTGCCAACCGATGGTCCTTTGATGGCATTAATCGATGGATTAAGGAGATTGATGAGCATGC
CCCTGGGGTTCCTAAAATCTTGGTGGGAAATCGGCTGCACCTGGCATTCAAGCGACAGGTGCCCACTGAA
CAGGCCCAGGCCTACGCCGAGCGCCTGGGTGTGACCTTCTTTGAGGTTAGCCCTCTGTGCAACTTCAACA
TTACAGAGTCCTTCACAGAGCTGGCTAGGATCGTGCTGCTGCGGCATGGGATGGACCGTCTCTGGAGGCC
GAGCAAGGTACTGAGTTTGCAAGAGCTCTGCTGCCGTGCTGTGGTGTCCTGCACGCCTGGGCACCTGGTA
GACAAGCTCCCCCTCCCTGTCGCCTTAAGAAGCCACCTTAAGTCTTTCTCGATGGCCAGTGGCCTGAACA
CCAGGATGATGCATGGCCGCTCCTACTCCCTCACTGCCAACTCCAGCCACAAGAGGAACAGCTTCCGGAA
AGTCAGGACCATCCGCCCACCCCAGAGCCCGCCCAGGAACTGTGCCAGGAACAGCTGCAAAATTTCTTAG

Translation (279 aa):
MMSSLGSPVRAYDFLLKFLLVGDSDVGKGEILASLQDGAAESPYGHPAGIDHKTTTILLDGRRVKLQLWD
TSGQGRFCTIFRSYSRGAQGVVLVYDIANRWSFDGINRWIKEIDEHAPGVPKILVGNRLHLAFKRQVPTE
QAQAYAERLGVTFFEVSPLCNFNITESFTELARIVLLRHGMDRLWRPSKVLSLQELCCRAVVSCTPGHLV
DKLPLPVALRSHLKSFSMASGLNTRMMHGRSYSLTANSSHKRNSFRKVRTIRPPQSPPRNCARNSCKIS


Links Key
 Links to:   History report
  BLAST report
  Entrez Gene
  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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