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Report for CCDS42575.1 (current version)

CCDS Status Species Chrom. Gene CCDS Release NCBI Annotation Release Ensembl Annotation Release Links
42575.1 Public Homo sapiens 19 BCAM 24 110 108 CCDS HistoryNCBI Gene:4059Re-query CCDS DB by CCDS ID:42575.1Re-query CCDS DB by GeneID:4059See the combined annotation on chromosome 19 in Sequence Viewer

Public Note for CCDS 42575.1
This CCDS ID represents the BCAM transcript variant described in PMIDs 8781446 and 9192786. It encodes the C-terminally truncated 78 kDa isoform described in PMIDs 3810828 and 7777537. The transcript is a candidate for nonsense-mediated mRNA decay (NMD), but the protein is represented because this is the only currently available transcript variant that can encode the 78 kDa isoform. This isoform was detected by immunoblotting in PMID:3810828, and the authors of PMID:7777537 indicate that this isoform was not detected when C-terminal antibodies were used, but it was when antibodies from the region in common with the 85 kDa isoform (CCDS12644.1 representation) were used, thereby suggesting that this C-terminally truncated isoform is valid.

Public since: CCDS release 5, NCBI annotation release 36.3, Ensembl annotation release 47

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


Attributes
Nonsense-mediated decay (NMD) candidate

Sequence IDs included in CCDS 42575.1

Original Current Source Nucleotide ID Protein ID MANE Status in CCDS Seq. Status Links
Original member Current member EBI ENST00000611077.5 ENSP00000481153.1 Accepted alive Link to Ensembl Transcript Viewer:ENST00000611077.5Link to Ensembl Protein Viewer:ENSP00000481153.1Re-query CCDS DB by Nucleotide ID:ENST00000611077Re-query CCDS DB by Protein ID:ENSP00000481153
Original member Current member NCBI NM_001013257.2 NP_001013275.1 Accepted alive Link to Nucleotide Sequence:NM_001013257.2Link to Protein Sequence:NP_001013275.1Re-query CCDS DB by Nucleotide ID:NM_001013257Re-query CCDS DB by Protein ID:NP_001013275Link to BLAST:NP_001013275.1

Chromosomal Locations for CCDS 42575.1

Assembly GRCh38.p14 (GCF_000001405.40)

On '+' strand of Chromosome 19 (NC_000019.10)
Genome Browser links: Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 19Link to Ensembl Genome Browser on chromosome 19See the combined annotation on chromosome 19 in Sequence Viewer

Chromosome Start Stop Links
19 44809125 44809206 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 19Link to Ensembl Genome Browser on chromosome 19
19 44811225 44811346 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 19Link to Ensembl Genome Browser on chromosome 19
19 44812163 44812391 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 19Link to Ensembl Genome Browser on chromosome 19
19 44812478 44812548 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 19Link to Ensembl Genome Browser on chromosome 19
19 44813250 44813346 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 19Link to Ensembl Genome Browser on chromosome 19
19 44813438 44813620 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 19Link to Ensembl Genome Browser on chromosome 19
19 44814152 44814288 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 19Link to Ensembl Genome Browser on chromosome 19
19 44814604 44814760 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 19Link to Ensembl Genome Browser on chromosome 19
19 44818522 44818637 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 19Link to Ensembl Genome Browser on chromosome 19
19 44818741 44818882 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 19Link to Ensembl Genome Browser on chromosome 19
19 44819056 44819192 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 19Link to Ensembl Genome Browser on chromosome 19
19 44819346 44819490 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 19Link to Ensembl Genome Browser on chromosome 19
19 44819582 44819730 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 19Link to Ensembl Genome Browser on chromosome 19

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 (1767 nt):
ATGGAGCCCCCGGACGCACCGGCCCAGGCGCGCGGGGCCCCGCGGCTGCTGTTGCTCGCAGTCCTGCTGG
CG
GCGCACCCAGATGCCCAGGCGGAGGTGCGCTTGTCTGTACCCCCGCTGGTGGAGGTGATGCGAGGAAA
G
TCTGTCATTCTGGACTGCACCCCTACGGGAACCCACGACCATTATATGCTGGAATGGTTCCTTACCGAC
CGC
TCGGGAGCTCGCCCCCGCCTAGCCTCGGCTGAGATGCAGGGCTCTGAGCTCCAGGTCACAATGCACG
AC
ACCCGGGGCCGCAGTCCCCCATACCAGCTGGACTCCCAGGGGCGCCTGGTGCTGGCTGAGGCCCAGGT
G
GGCGACGAGCGAGACTACGTGTGCGTGGTGAGGGCAGGGGCGGCAGGCACTGCTGAGGCCACTGCGCGG
CTC
AACGTGTTTGCAAAGCCAGAGGCCACTGAGGTCTCCCCCAACAAAGGGACACTGTCTGTGATGGAGG
AC
TCTGCCCAGGAGATCGCCACCTGCAACAGCCGGAACGGGAACCCGGCCCCCAAGATCACGTGGTATCG
C
AACGGGCAGCGCCTGGAGGTGCCCGTAGAGATGAACCCAGAGGGCTACATGACCAGCCGCACGGTCCGG
GAG
GCCTCGGGCCTGCTCTCCCTCACCAGCACCCTCTACCTGCGGCTCCGCAAGGATGACCGAGACGCCA
GC
TTCCACTGCGCCGCCCACTACAGCCTGCCCGAGGGCCGCCACGGCCGCCTGGACAGCCCCACCTTCCA
C
CTCACCCTGCACTATCCCACGGAGCACGTGCAGTTCTGGGTGGGCAGCCCGTCCACCCCAGCAGGCTGG
GTA
CGCGAGGGTGACACTGTCCAGCTGCTCTGCCGGGGGGACGGCAGCCCCAGCCCGGAGTATACGCTTT
TC
CGCCTTCAGGATGAGCAGGAGGAAGTGCTGAATGTGAATCTCGAGGGGAACTTGACCCTGGAGGGAGT
G
ACCCGGGGCCAGAGCGGGACCTATGGCTGCAGAGTGGAGGATTACGACGCGGCAGATGACGTGCAGCTC
TCC
AAGACGCTGGAGCTGCGCGTGGCCTATCTGGACCCCCTGGAGCTCAGCGAGGGGAAGGTGCTTTCCT
TA
CCTCTAAACAGCAGTGCAGTCGTGAACTGCTCCGTGCACGGCCTGCCCACCCCTGCCCTACGCTGGAC
C
AAGGACTCCACTCCCCTGGGCGATGGCCCCATGCTGTCGCTCAGTTCTATCACCTTCGATTCCAATGGC
ACC
TACGTATGTGAGGCCTCCCTGCCCACAGTCCCGGTCCTCAGCCGCACCCAGAACTTCACGCTGCTGG
TC
CAAGGCTCGCCAGAGCTAAAGACAGCGGAAATAGAGCCCAAGGCAGATGGCAGCTGGAGGGAAGGAGA
C
GAAGTCACACTCATCTGCTCTGCCCGCGGCCATCCAGACCCCAAACTCAGCTGGAGCCAATTGGGGGGC
AGC
CCCGCAGAGCCAATCCCCGGACGGCAGGGTTGGGTGAGCAGCTCTCTGACCCTGAAAGTGACCAGCG
CC
CTGAGCCGCGATGGCATCTCCTGTGAAGCCTCCAACCCCCACGGGAACAAGCGCCATGTCTTCCACTT
C
GGCACCGTGAGCCCCCAGACCTCCCAGGCTGGAGTGGCCGTCATGGCCGTGGCCGTCAGCGTGGGCCTC
CTG
CTCCTCGTCGTTGCTGTCTTCTACTGCGTGAGACGCAAAGGGGGCCCCTGCTGCCGCCAGCGGCGGG
AG
AAGGGGGCTCCGTGA


Translation (588 aa):
MEPPDAPAQARGAPRLLLLAVLLAAHPDAQAEVRLSVPPLVEVMRGKSVILDCTPTGTHDHYMLEWFLTD
R
SGARPRLASAEMQGSELQVTMHDTRGRSPPYQLDSQGRLVLAEAQVGDERDYVCVVRAGAAGTAEATAR
L
NVF
AKPEATEVSPNKGTLSVMEDSAQEIATCNSRNGNPAPKITWYRNGQRLEVPVEMNPEGYMTSRTVR
E
ASGLLSLTSTLYLRLRKDDRDASFHCAAHYSLPEGRHGRLDSPTFHLTLH
YPTEHVQFWVGSPSTPAGW
V
REGDTVQLLCRGDGSPSPEYTLFRLQ
DEQEEVLNVNLEGNLTLEGVTRGQSGTYGCRVEDYDAADDVQL
S
KTLELRVA
YLDPLELSEGKVLSLPLNSSAVVNCSVHGLPTPALRWTKDSTPLGDGPMLSLSSITFDSNG
T
YVCEASLPTVPVLSRTQNFTLLVQ
GSPELKTAEIEPKADGSWREGDEVTLICSARGHPDPKLSWSQLGG
S
PAEPIPGRQGWVSSSLTLKVTSALSRDGISCEASNPHGNKRHVFHFGTVSPQTSQAGVAVMAVAVSVGL
L
LLVVAVFYCVRRKGGPCCRQRREKGAP




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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