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Other CD2 Family entries

IMGT RPI entry from gene to protein for Mus musculus SLAMF1

Citing IMGT RPI entry for SLAMF1

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

SLAMF1 Gene exon/intron organization

Legend:

Number of alleles: 7

IMGT reference alleles

Allele names Gene functionality Strains IMGT reference sequences
Exons Accession numbers Molecule type
SLAMF1*01 F EX1 AF164519 gDNA
EX2-3 AF164520
EX4 AF164521
EX5 AF164522
EX6-7 AF164523
SLAMF1*02 F C57BL/6J EX1-7 AK036429 cDNA (1)
SLAMF1*03 F C57BL/6J EX2-7 AK016818 cDNA (2) partial
SLAMF1*04 F BALB/c EX1-7 AF149791 cDNA (3)
SLAMF1*05 F NOD EX1-7 AK172138 cDNA (4)
SLAMF1*06 F EX1-7 AB196798 cDNA (5)
SLAMF1*07 F EX1-7 AB196797 cDNA (6)

IMGT reference sequences (in FASTA format) for the allele(s): SLAMF1*01 to SLAMF1*07

Other sequences from the literature

Allele names Gene functionality Strains IMGT reference sequences
Exons Accession numbers Molecule type
SLAMF1*01 F C57BL/6J EX3-7 AK169547 cDNA partial
NOD EX1-7 AK156445 cDNA
EX1-7 AF160990
C57BL/6J EX1-5' AK037780 cDNA (7) splicing B
EX1-7 NM_013730 cDNA
SLAMF1*04 F EX1-7 AB196796 cDNA
EX1-7 BC117095
EX1-5' AF149792 cDNA splicing B
SLAMF1*06 F EX1-7 BC117099 cDNA

Corresponding protein database accession numbers

Allele names Accession numbers Number of amino acids Protein isoform
Nucleotide databases Protein databases
SLAMF1*01 AF164519 Tr:Q9QUM4 343 aa 1
AF164520
AF164521
AF164522
AF164523
NM_013730 NP_038758 343 aa 1
SLAMF1*02 AK036429 343 aa 1
SLAMF1*03 AK016818 Tr:Q9CUC8 267 aa 1 partial
SLAMF1*04 AF149791 343 aa 1
SLAMF1*05 AK172138 343 aa 1
SLAMF1*06 AB196798 343 aa 1
SLAMF1*07 AB196797 343 aa 1
IMGT notes:
  1. (1) In EX2[D1] a144>t, numbering according to unique numbering for V-DOMAIN and V-LIKE-DOMAIN.
  2. (2) No EX1 and partial EX2[D2]
  3. (3) In EX2[D1] a251>g, numbering according to unique numbering for V-DOMAIN and V-LIKE-DOMAIN.
  4. (4) In EX2[D1] a251>g; numbering according to unique numbering for V-DOMAIN and V-LIKE-DOMAIN. In EX5 a38>g, K13>E.
  5. (5) In EX2[D1] a251>g, numbering according to unique numbering for V-DOMAIN and V-LIKE-DOMAIN. In EX4 g62>a.
  6. (6) Nine differences.
  7. (7) Splicing B (326 aa). In EX5 there is no splice site and terminate after extending 31 codons beyond normal 3' splice site.

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.

SLAMF1*01: AF164519(g)

Nucleotide sequence

1        atggatccca aaggatccct ttcctggaga atacttctgt ttctctccct ggcttttgag

61       ttgagctacg gaacaggtgg aggtgtgatg gattgcccag tgattctcca gaagctggga

121      caggacacgt ggctgcccct gacgaatgaa catcagataa ataagagcgt gaacaaaagt

181      gtccgcatcc tcgtcaccat ggcgacgtcc ccaggaagca aatccaacaa gaaaattgtg

241      tcttttgatc tctctaaagg gagctatcca gatcacctgg aggatggcta ccactttcaa

301      tcaaaaaacc tgagcctgaa gatcctcggg aacaggcggg agagtgaagg atggtacttg

361      gtgagcgtgg aggagaacgt ttctgttcag caattctgca agcagctgaa gctttatgaa

421      caggtctccc ctccagagat taaagtgcta aacaaaaccc aggagaacga gaatgggacc

481      tgcagcttgc tgttggcctg cacagtgaag aaaggggacc atgtgactta cagctggagt

541      gatgaggcag gcacccacct gctgagccga gccaaccgct cccacctcct gcacatcact

601      cttagcaacc agcatcaaga cagcatctac aactgcaccg caagcaaccc tgtcagcagt

661      atctctagga ccttcaacct atcatcgcaa gcatgcaagc aggaatcctc ctcagaatcg

721      agtccatgga tgcaatatac tcttgtacca ctgggggtcg ttataatctt catcctggtt

781      ttcacggcaa taataatgat gaaaagacaa ggtaaatcaa atcactgcca gccaccagtg

841      gaagaaaaaa gccttactat ttatgcccaa gtacagaaat cagggcctca agagaagaaa

901      cttcatgatg ccctaacaga tcaggacccc tgcacaacca tttatgtggc tgccacagag

961      cctgccccag agtctgtcca ggaaccaaac cccaccacag tttatgccag tgtgacactg

1021     ccagagagct ga
Nucleotide sequence in FASTA format (without gaps) SLAMF1*01

Amino acid sequence

1        MDPKGSLSWR ILLFLSLAFE LSYGTGGGVM DCPVILQKLG QDTWLPLTNE HQINKSVNKS

61       VRILVTMATS PGSKSNKKIV SFDLSKGSYP DHLEDGYHFQ SKNLSLKILG NRRESEGWYL

121      VSVEENVSVQ QFCKQLKLYE QVSPPEIKVL NKTQENENGT CSLLLACTVK KGDHVTYSWS

181      DEAGTHLLSR ANRSHLLHIT LSNQHQDSIY NCTASNPVSS ISRTFNLSSQ ACKQESSSES

241      SPWMQYTLVP LGVVIIFILV FTAIIMMKRQ GKSNHCQPPV EEKSLTIYAQ VQKSGPQEKK

301      LHDALTDQDP CTTIYVAATE PAPESVQEPN PTTVYASVTL PES*
Amino acid sequence in FASTA format (without gap) SLAMF1*01

Legend: