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Report for CCDS47281.1 (current version)

CCDS Status Species Chrom. Gene CCDS Release NCBI Annotation Release Ensembl Annotation Release Links
47281.1 Public Homo sapiens 5 PCDHA6 24 110 108 CCDS HistoryNCBI Gene:56142Re-query CCDS DB by CCDS ID:47281.1Re-query CCDS DB by GeneID:56142See the combined annotation on chromosome 5 in Sequence Viewer

Public Note for CCDS 47281.1
A downstream start codon is annotated for this CCDS representation because its use is more consistent with the presence of an N-terminal signal peptide in the protein, which is known to contain extracellular cadherin domains. However, it should be noted that an alternative upstream start codon exists, which would result in a protein that is 9 aa longer at the N-terminus and is less likely to contain a signal peptide. The upstream start codon has a weak Kozak signal, so it is possible that leaky scanning by ribosomes will allow the use of the downstream start codon. There is no experimental evidence indicating which start codon is used in vivo.

Public since: CCDS release 6, NCBI annotation release 37.1, Ensembl annotation release 55

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


Attributes
CDS uses downstream AUG

Sequence IDs included in CCDS 47281.1

Original Current Source Nucleotide ID Protein ID MANE Status in CCDS Seq. Status Links
Original member Current member EBI ENST00000529310.6 ENSP00000433378.1 MANE Select Accepted alive Link to Ensembl Transcript Viewer:ENST00000529310.6Link to Ensembl Protein Viewer:ENSP00000433378.1Re-query CCDS DB by Nucleotide ID:ENST00000529310Re-query CCDS DB by Protein ID:ENSP00000433378
Original member Current member NCBI NM_018909.4 NP_061732.1 MANE Select Accepted alive Link to Nucleotide Sequence:NM_018909.4Link to Protein Sequence:NP_061732.1Re-query CCDS DB by Nucleotide ID:NM_018909Re-query CCDS DB by Protein ID:NP_061732Link to BLAST:NP_061732.1

RefSeq Length Related UniProtKB/SwissProt Length Identity Gaps Mismatches
NP_061732.1 950 Q9UN73-1 950 100% 0 0

Chromosomal Locations for CCDS 47281.1

Assembly GRCh38.p14 (GCF_000001405.40)

On '+' strand of Chromosome 5 (NC_000005.10)
Genome Browser links: Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 5Link to Ensembl Genome Browser on chromosome 5See the combined annotation on chromosome 5 in Sequence Viewer

Chromosome Start Stop Links
5 140828092 140830485 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 5Link to Ensembl Genome Browser on chromosome 5
5 140978949 140979007 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 5Link to Ensembl Genome Browser on chromosome 5
5 140982475 140982563 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 5Link to Ensembl Genome Browser on chromosome 5
5 141009627 141009937 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 5Link to Ensembl Genome Browser on chromosome 5

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 (2853 nt):
ATGGTGTTTACCCCGGAGGATAGATTGGGAAAGCAATGTCTGCTCCTCCCGCTTCTGCTCCTCGCAGCCT
GGAAGGTGGGGAGCGGCCAGCTCCACTACTCCGTACCCGAGGAGGCCAAACACGGCACCTTCGTGGGCCG
GATCGCGCAGGACCTGGGGCTGGAGCTGGCGGAGCTGGTGCCGCGCCTGTTCAGGATGGCCTCCAAAGAC
CGCGAGGACCTTCTGGAGGTAAATCTGCAGAATGGCATTTTGTTTGTGAATTCTCGGATCGACCGCGAGG
AGCTGTGCGGGCGGAGCGCGGAGTGCAGCATCCACCTGGAGGTGATCGTGGACAGGCCGCTGCAGGTTTT
CCATGTGGACGTGGAGGTGAGGGACATTAACGACAACCCGCCCTTGTTCCCGGTAGAGGAACAAAGAGTG
CTGATTTACGAATCTAGGCTGCCAGATTCTGTGTTTCCACTGGAGGGCGCGTCCGATGCAGATGTTGGCT
CAAATTCCATCTTAACCTATAAACTCAGTTCTAGCGAATACTTCGGGCTAGATGTGAAAATAAACAGTGA
TGACAATAAACAAATTGGGCTCTTATTAAAGAAATCCTTGGACAGAGAGGAAGCTCCTGCACACAACTTA
TTCCTGACAGCCACAGATGGGGGCAAACCTGAGCTCACAGGCACTGTTCAGCTGCTGGTCACAGTGCTGG
ATGTGAATGATAATGCTCCCACTTTCGAACAGTCTGAATACGAAGTAAGAATATTCGAAAATGCAGACAA
CGGAACAACAGTTATCAGACTGAATGCTTCTGATCGGGATGAAGGAGCGAATGGGGCAATTTCATATTCT
TTTAATAGCCTTGTTGCAGCCATGGTTATTGACCACTTTAGCATAGATCGAAATACGGGAGAAATAGTGA
TTCGGGGTAATTTGGATTTTGAACAAGAAAACTTATACAAAATCCTCATTGACGCCACGGACAAAGGCCA
TCCTCCCATGGCGGGTCATTGCACCGTTTTAGTGAGAATTTTGGATAAAAATGATAACGTCCCTGAGATA
GCACTGACTTCCTTATCCTTGCCTGTACGTGAAGACGCTCAATTTGGTACTGTCATCGCCCTAATTAGCG
TGAACGACCTCGATTCAGGTGCCAACGGGCAGGTGAACTGCTCGCTGACGCCTCACGTCCCTTTCAAGCT
GGTGTCCACCTTCAAGAATTACTACTCGTTGGTGCTGGACAGTGCCCTGGACCGCGAGAGCGTGTCGGCC
TATGAGTTGGTGGTAACCGCGCGGGACGGGGGCTCGCCTTCGCTGTGGGCCACCGCCAGCTTGTCTGTGG
AGGTGGCCGACATGAATGACAATGCTCCGGCGTTCGCGCAGCCCGAGTACACAGTGTTCGTGAAGGAGAA
CAACCCGCCGGGCTGCCACATCTTCACGGTGTCTGCGCGAGACGCGGACGCGCAGGAGAACGCGCTGGTG
TCCTACTCGCTGGTGGAGCGGCGGGTGGGCGAGCGCGCGTTGTCGAGCTACATTTCGGTGCACGCGGAGA
GCGGCAAGGTGTACGCGCTGCAGCCGCTGGACCACGAGGAGCTAGAGCTGCTGCAGTTTCAGGTGAGCGC
GCGCGACGCGGGCGTGCCGCCTCTGGGCAGCAACGTGACGCTGCAGGTGTTCGTGCTGGACGAGAACGAC
AACGCGCCGGCGCTGCTGGCGCCTCGGGTGGGTGGTACTGGTGGTGCAGTGAGCGAGCTGGTGCCGCGGT
CACTGGGTGCAGGCCAAGTGGTGGCGAAGGTGCGCGCAGTTGACGCCGACTCAGGCTACAACGCGTGGCT
TTCGTATGAGCTGCAGCCCCCGGCAAGCAGCGCTCGCTTCCCGTTTCGCGTGGGGCTGTACACGGGCGAG
ATCAGCACCACTCGTGTCCTGGACGAAGCGGACTCTCCGCGCCACCGGCTGCTGGTGCTGGTGAAAGACC
ACGGTGAGCCGGCGCTGACAGCGACGGCCACGGTTCTGGTGTCGCTGGTGGAGAGTGGCCAGGCTCCAAA
GGCGTCATCACGGGCGTCGGTGGGCGCCGCGGGCCCAGAGGCGGCGCTGGTGGATGTCAACGTGTACCTG
ATCATCGCCATCTGCGCGGTATCCAGCCTGCTGGTCCTCACGCTACTGCTGTACACAGCGCTGCGGTGCT
CGGCGCCACCCACCGAGGGCGCGTGCACGGCGGACAAGCCCACGCTGGTGTGCTCCAGCGCAGTGGGGAG
CTGGTCGTACTCGCAGCAGAGGCGGCAGAGGGTGTGCTCCGGGGAGGGCCCACCCAAGATGGATCTCATG
GCCTTTAGCCCCAGCCTTTCACCTTGTCCTATTATGATGGGTAAGGCGGAGAATCAGGATTTAAATGAAG
ATCATGATGCCAAACCACGACAGCCCAACCCTGACTGGCGTTACTCTGCCTCCCTGAGAGCAGGCATGCA
CAGCTCTGTGCACCTAGAGGAGGCTGGCATTCTACGGGCTGGTCCAGGAGGGCCTGATCAGCAGTGGCCA
ACAGTATCCAGTGCAACACCAGAACCAGAGGCAGGAGAAGTGTCCCCTCCAGTCGGTGCGGGTGTCAACA
GCAACAGCTGGACCTTTAAATACGGACCAGGCAACCCCAAACAATCCGGTCCCGGTGAGTTGCCCGACAA
ATTCATTATCCCAGGATCTCCTGCAATCATCTCCATCCGGCAGGAGCCTACTAACAGCCAAATTGACAAA
AGTGACTTCATAACCTTCGGCAAAAAGGAGGAGACCAAGAAAAAGAAGAAAAAGAAGAAGGGTAACAAGA
CCCAGGAGAAAAAAGAGAAAGGGAACAGCACGACTGACAACAGTGACCAGTGA

Translation (950 aa):
MVFTPEDRLGKQCLLLPLLLLAAWKVGSGQLHYSVPEEAKHGTFVGRIAQDLGLELAELVPRLFRMASKD
REDLLEVNLQNGILFVNSRIDREELCGRSAECSIHLEVIVDRPLQVFHVDVEVRDINDNPPLFPVEEQRV
LIYESRLPDSVFPLEGASDADVGSNSILTYKLSSSEYFGLDVKINSDDNKQIGLLLKKSLDREEAPAHNL
FLTATDGGKPELTGTVQLLVTVLDVNDNAPTFEQSEYEVRIFENADNGTTVIRLNASDRDEGANGAISYS
FNSLVAAMVIDHFSIDRNTGEIVIRGNLDFEQENLYKILIDATDKGHPPMAGHCTVLVRILDKNDNVPEI
ALTSLSLPVREDAQFGTVIALISVNDLDSGANGQVNCSLTPHVPFKLVSTFKNYYSLVLDSALDRESVSA
YELVVTARDGGSPSLWATASLSVEVADMNDNAPAFAQPEYTVFVKENNPPGCHIFTVSARDADAQENALV
SYSLVERRVGERALSSYISVHAESGKVYALQPLDHEELELLQFQVSARDAGVPPLGSNVTLQVFVLDEND
NAPALLAPRVGGTGGAVSELVPRSLGAGQVVAKVRAVDADSGYNAWLSYELQPPASSARFPFRVGLYTGE
ISTTRVLDEADSPRHRLLVLVKDHGEPALTATATVLVSLVESGQAPKASSRASVGAAGPEAALVDVNVYL
IIAICAVSSLLVLTLLLYTALRCSAPPTEGACTADKPTLVCSSAVGSWSYSQQRRQRVCSGEGPPKMDLM
AFSPSLSPCPIMMGKAENQDLNEDHDAKPRQPNPDWRYSASLRAGMHSSVHLEEAGILRAGPGGPDQQWP
TVSSATPEPEAGEVSPPVGAGVNSNSWTFKYGPGNPKQSGPGELPDKFIIPGSPAIISIRQEPTNSQIDK
SDFITFGKKEETKKKKKKKKGNKTQEKKEKGNSTTDNSDQ


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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