IMGT Repertoire (RPI)

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Other CD2 Family entries

Homo sapiens: CD2, CD58, CD48, CD84, CD244, SLAMF6, Ly9
Mus musculus: CD2, CD48, CD84, CD244, SLAMF1, SLAMF6, Ly9

IMGT RPI entry from gene to protein for Homo sapiens 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)

with permission from Research Signpost

IMGT gene name and definition

IMGT gene name: Homo sapiens SLAMF1
IMGT gene definition: signaling lymphocytic activation molecule family member 1

Chromosomal localization

Chromosome: 1
Chromosomal localization: 1q22-q23

Gene exon/intron organization

Legend:

Length of the exons and introns are in base pairs.
Colors are according to IMGT Color menu for regions and domains

Number of alleles: 2

IMGT reference alleles

Allele names	Gene functionality	IMGT reference sequences
Allele names	Gene functionality	Exons	Accession numbers	Molecule type
SLAMF1*01	F	EX1-7	AL121985[1]	gDNA
SLAMF1*02	F	EX1-7	AY040554	cDNA (1)

IMGT reference sequences (in FASTA format) for the allele(s): SLAMF1*01 to SLAMF1*02

Nucleotide sequence in FASTA format with gaps according to the IMGT unique numbering
Amino acid sequence in FASTA format with gaps according to the IMGT unique numbering
Nucleotide sequence in FASTA format without gaps
Amino acid sequence in FASTA format without gaps

Other sequences from the literature

Allele names	Gene functionality	IMGT reference sequences
Allele names	Gene functionality	Exons	Accession numbers	Molecule type
SLAMF1*01	F	EX1-7	AL138930	gDNA
		EX2	AF252303	gDNA (2)
		EX3	AF252304
		EX4	AF252305
		EX5-6	AF252306
		EX1-7	U33017	cDNA
		EX1-2	BC067847	cDNA (3) Splicing B
		EX1-2, EX8	BC012602	cDNA (4) Splicing C

Corresponding protein database accession numbers

Allele names	Accession numbers		Number of amino acids	Protein isoform
Allele names	Nucleotide databases	Protein databases	Number of amino acids	Protein isoform
SLAMF1*01	AL121985	Q13291	335 aa	1
	NM_003037	NP_003028	335 aa	1
	BC067847	Tr: Q6NVW8	148 aa	2
	BC01262	Tr: Q96QJ2	144 aa	3
SLAMF1*02	AY040554	Tr: Q96QR3	335 aa	1

IMGT notes:

(1) In EX5 c146>t; P49>S.
(2) Partial. No EX1
(3) Splicing B (148 aa). EX2 has no 3' splice site and terminate 10 codons beyond the normal 3' splice site. No EX3-6.
(4) Splicing C (144 aa). EX2 has a alternative splice site 14 codons up stream to the normal 3' splice site and utilize novel exon (EX8) of 20 codons length.

IMGT references:

[1] Cocks, B.G. et al, Nature 376, 260-263 (1995). PMID:7617038

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: AL121985(g)

Nucleotide sequence

1        atggatccca aggggctcct ctccttgacc ttcgtgctgt ttctctccct ggcttttggg

61       gcaagctacg gaacaggtgg gcgcatgatg aactgcccaa agattctccg gcagttggga

121      agcaaagtgc tgctgcccct gacatatgaa aggataaata agagcatgaa caaaagcatc

181      cacattgtcg tcacaatggc aaaatcactg gagaacagtg tcgagaacaa aatagtgtct

241      cttgatccat ccgaagcagg ccctccacgt tatctaggag atcgctacaa gttttatctg

301      gagaatctca ccctggggat acgggaaagc aggaaggagg atgagggatg gtaccttatg

361      accctggaga aaaatgtttc agttcagcgc ttttgcctgc agttgaggct ttatgagcag

421      gtctccactc cagaaattaa agttttaaac aagacccagg agaacgggac ctgcaccttg

481      atactgggct gcacagtgga gaagggggac catgtggctt acagctggag tgaaaaggcg

541      ggcacccacc cactgaaccc agccaacagc tcccacctcc tgtccctcac cctcggcccc

601      cagcatgctg acaatatcta catctgcacc gtgagcaacc ctatcagcaa caattcccag

661      accttcagcc cgtggcccgg atgcaggaca gacccctcag aaacaaaacc atgggcagtg

721      tatgctgggc tgttaggggg tgtcatcatg attctcatca tggtggtaat actacagttg

781      agaagaagag gtaaaacgaa ccattaccag acaacagtgg aaaaaaaaag ccttacgatc

841      tatgcccaag tccagaaacc aggtcctctt cagaagaaac ttgactcctt cccagctcag

901      gacccttgca ccaccatata tgttgctgcc acagagcctg tcccagagtc tgtccaggaa

961      acaaattcca tcacagtcta tgctagtgtg acacttccag agagctga

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

Amino acid sequence

1        MDPKGLLSLT FVLFLSLAFG ASYGTGGRMM NCPKILRQLG SKVLLPLTYE RINKSMNKSI

61       HIVVTMAKSL ENSVENKIVS LDPSEAGPPR YLGDRYKFYL ENLTLGIRES RKEDEGWYLM

121      TLEKNVSVQR FCLQLRLYEQ VSTPEIKVLN KTQENGTCTL ILGCTVEKGD HVAYSWSEKA

181      GTHPLNPANS SHLLSLTLGP QHADNIYICT VSNPISNNSQ TFSPWPGCRT DPSETKPWAV

241      YAGLLGGVIM ILIMVVILQL RRRGKTNHYQ TTVEKKSLTI YAQVQKPGPL QKKLDSFPAQ

301      DPCTTIYVAA TEPVPESVQE TNSITVYASV TLPES*

Amino acid sequence in FASTA format (without gap) SLAMF1*01

Legend:

Colors are according to IMGT Color menu for regions and domains
Nucleotide and amino acid letters (in bold) in purple, green or blue are according to IMGT Color menu for splicing types.

IMGT links

IMGT Repertoire

Chromosomal localization:
Alignment of alleles:
Protein displays:
IMGT Collier de perles: V-LIKE-DOMAIN, C-LIKE-DOMAIN

IMGT databases

IMGT/3Dstructure-DB:

External links

Nomenclature

HGNC: 10903

Genome databases

Entrez Gene: 6504
GENATLAS: 9994
GeneCards: GC01M158844
GDB:
OMIM: 603492

Sequence databases

EMBL: AL121985, AY040554, AL138930, AF252303, AF252304, AF252305, AF252306, U33017, BC067847, BC012602
GenBank: AL121985, AY040554, AL138930, AF252303, AF252304, AF252305, AF252306, U33017, BC067847, BC012602
DDBJ: AL121985, AY040554, AL138930, AF252303, AF252304, AF252305, AF252306, U33017, BC067847, BC012602
Swiss-Prot: Q13291
TrEMBL: Q5W172, Q6NVW8, Q96QJ2, Q96QR3, Q9HBE7, Q9HBE8, Q9HBE9
NCBI: NM_003037, NP_003028

Structure databases

PDB: 1D4T, 1D4W, 1KA6, 1KA7, 1M27