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IMGT RPI entry from gene to protein for Homo sapiens PDCD1

Citing IMGT RPI entry for PDCD1

Duprat, E. et al. IMGT standardization for alleles and mutations of the V-LIKE-DOMAINs and C-LIKE-DOMAINs of the immunoglobulin superfamily, Recent Research Developments in Human Genetics, 2, 111-136 (2004) pdf with permission from Research Signpost

IMGT gene name and definition

Chromosomal localization

Gene exon/intron organization

PDCD1 Gene exon/intron organization

Legend:

Number of alleles: 5

IMGT reference alleles

Allele names Gene functionality IMGT reference sequences
Exons Accession numbers Molecule type
PDCD1*01 F EX1-5 AF363458 [1] gDNA
PDCD1*02 F EX1-5 AY238517 cDNA (1)
PDCD1*03 F EX1-5 BC074740 [2] cDNA (2)
PDCD1*04 F EX1-5 L27440 [3] cDNA (3)
PDCD1*05 F EX1-5 U64863 [3] cDNA (4)

IMGT reference sequences (in FASTA format) for the allele(s): PDCD1*01 to PDCD1*05

Other sequences from the literature

Allele names Gene functionality IMGT reference sequences
Clones Exons Accession numbers Molecule type
PDCD1*05 F EX1-5 NM_005018 gDNA

Corresponding protein database accession numbers

Allele names Accession numbers Number of amino acids Protein isoform
Nucleotide Databases Protein Databases
PDCD1*01 AF363458 288 aa 1
PDCD1*02 AY238517 288 aa 1
PDCD1*03 BC074740 288 aa 1
PDCD1*04 L27440 288 aa 1
PDCD1*05 U64863 Q15116 288 aa 1
NM_005018 NP_005009 288 aa 1
IMGT notes:
  1. (1) In EX5 c177>t.
  2. (2) EX2[D] c165>t, numbering according to the unique IMGT numbering for the V-DOMAIN and V-LIKE-DOMIAN.
  3. (3) In EX3 c48>t; P16>S and in EX5 c177>t.
  4. (4) c20>t; S7>F in EX2 according to the IMGT unique numbering for the V-LIKE-DOMAIN.
IMGT references:
  1. [1] Prokunina.L. et al., Natural Genetics, 32, 666-669, (2002). PMID: 12402038
  2. [2] Srausberg.R.L. et al., Proc Natl Acad Sci U S A, 99(26), 16899-903, (2002). PMID: 12477932
  3. [3] Shinohara.T. et al., Genomics, 23 (3), 704-706, (1994). PMID: 7851902

Genomic sequence

Coding region sequence

The coding region (CODING-REGION) sequence starts from INIT-CODON (or its encoded amino acid) to STOP-CODON (not included).
The nucleotide sequence is extracted from cDNA (c) sequences and/or is built by artificial exon joining from genomic DNA (g) sequences. The amino acid sequence is the translation of the nucleotide sequence.

PDCD1*01: AF363458(g)

Nucleotide sequence

1        atgcagatcc cacaggcgcc ctggccagtc gtctgggcgg tgctacaact gggctggcgg

61       ccaggatggt tcttagactc cccagacagg ccctggaacc cccccacctt ctccccagcc

121      ctgctcgtgg tgaccgaagg ggacaacgcc accttcacct gcagcttctc caacacatcg

181      gagagcttcg tgctaaactg gtaccgcatg agccccagca accagacgga caagctggcc

241      gccttccccg aggaccgcag ccagcccggc caggactgcc gcttccgtgt cacacaactg

301      cccaacgggc gtgacttcca catgagcgtg gtcagggccc ggcgcaatga cagcggcacc

361      tacctctgtg gggccatctc cctggccccc aaggcgcaga tcaaagagag cctgcgggca

421      gagctcaggg tgacagagag aagggcagaa gtgcccacag cccaccccag cccctcaccc

481      aggccagccg gccagttcca aaccctggtg gttggtgtcg tgggcggcct gctgggcagc

541      ctggtgctgc tagtctgggt cctggccgtc atctgctccc gggccgcacg agggacaata

601      ggagccaggc gcaccggcca gcccctgaag gaggacccct cagccgtgcc tgtgttctct

661      gtggactatg gggagctgga tttccagtgg cgagagaaga ccccggagcc ccccgtgccc

721      tgtgtccctg agcagacgga gtatgccacc attgtctttc ctagcggaat gggcacctca

781      tcccccgccc gcaggggctc agccgacggc cctcggagtg cccagccact gaggcctgag

841      gatggacact gctcttggcc cctctaa
Nucleotide sequence in FASTA format (without gaps) PDCD1*01

Amino acid sequence

1        MQIPQAPWPV VWAVLQLGWR PGWFLDSPDR PWNPPTFSPA LLVVTEGDNA TFTCSFSNTS

61       ESFVLNWYRM SPSNQTDKLA AFPEDRSQPG QDCRFRVTQL PNGRDFHMSV VRARRNDSGT

121      YLCGAISLAP KAQIKESLRA ELRVTERRAE VPTAHPSPSP RPAGQFQTLV VGVVGGLLGS

181      LVLLVWVLAV ICSRAARGTI GARRTGQPLK EDPSAVPVFS VDYGELDFQW REKTPEPPVP

241      CVPEQTEYAT IVFPSGMGTS SPARRGSADG PRSAQPLRPE DGHCSWPL*
Amino acid sequence in FASTA format (without gap) PDCD1*01

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