H-InvDB_8.3 released on March 26, 2013. Search by Keyword H-Inv ID (HIT) H-Inv cluster ID (HIX) H-Inv protein ID (HIP) H-Inv gene family/group (HIF) Accession number Chromosome number Chromosome band Definition* Data source ID --- CCDS ID dbSNP ID (rs number) EC number Ensembl ID EntrezGene ID FR ID FR Accession number GO ID GO name* HGNC gene symbol HGNC gene name* InterPro ID InterPro name* OMIM ID OMIM title* Pathway ID Pathway name* RefSeq (gene) ID RefSeq (protein) ID SCOP ID UniProt for Advanced Search

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H-Invitational ID: HIT000014463 Accession number: AK057856 Created date: 26-Mar-2013 Last modified: 20-Apr-2012 Definition: Similar to Integrin alpha-M; CD11 antigen-like family member B; CR-3 alpha chain; Cell surface glycoprotein MAC-1 subunit alpha; Leukocyte adhesion receptor MO1; Neutrophil adherence receptor; AltName: CD_antigen=CD11b; Precursor;

		Select format Flat file XML file Nucleotide sequence fasta Protein sequence fasta

Transcript original information Accession number AK057856.1 CAGE tag ID NA EST ID NA Clone Number CBR06564 Experimental resources   NBRC ; HGPD ; Antibody (ITGAM) ; Catalog (ITGAM); Sequence data provider Project:FLJ; Provider:FLJ/IMSUT;  Annotation project H-Invitational FLcDNA Length of cDNA 1680[bp] (No. of exon:10)[A:379 T:401 G:438 C:462] Devision HUM Molecular type mRNA Library origin Cell type NA Tissue type brain Develpmental stage NA

Sequence quality information CDS feature Complete CDS Kozak sequence NA PolyA NA Vector/adapter sequence NA Frame shift NA Remaining intron NA Splice site acceptor (NAGNAG) NA Transcript quality feature NA Notes NA

TTTTTTTCTGCCCTTCTTTGCTTTGGTGGCTTCCTTGTGGTTCCTCAGTG GTGCCTGCAACCCCTGGTTCACCTCCTTCCAGGTTCTGGCTCCTTCCAGC CATGGCTCTCAGAGTCCTTCTGTTAACAGCCTTGACCTTATGTCATGGGT TCAACTTGGACACTGAAAACGCAATGACCTCCCATAGCCAGCGGATAGCA GGCTCCAAGCTCTCTCCCAGGCTCCAGTATTTTGGTCAGTCACTGAGTGG GGGCCAGGACCTCACAATGGATGGACTGGTAGACCTGACTGTAGGAGCCC AGGGGCACGTGCTGCTGCTCAGGTCCCAGCCAGTACTGAGAGTCAAGGCA ATCATGGAGTTCAATCCCAGGGAAGTGGCAAGGAATGTATTTGAGTGTAA TGATCAGGTGGTGAAAGGCAAGGAAGCCGGAGAGGTCAGAGTCTGCCTCC ATGTCCAGAAGAGCACACGGGATCGGCTAAGAGAAGGACAGATCCAGAGT GTTGTGACTTATGACCTGGCTCTGGACTCCGGCCGCCCACATTCCCGCGC CGTCTTCAATGAGACAAAGAACAGCACACGCAGACAGACACAGGTCTTGG GGCTGACCCAGACTTGTGAGACCCTGAAACTACAGTTGCCGAATTGCATC GAGGACCCAGTGAGCCCCATTGTGCTGCGCCTGAACTTCTCTCTGGTGGG AACGCCATTGTCTGCTTTCGGGAACCTCCGGCCAGTGCTGGCGGAGGATG CTCAGAGACTCTTCACAGCCTTGTTTCCCTTTGAGAAGAATTGTGGCAAT GACAACATCTGCCAGGATGACCTCAGCATCACCTTCAGTTTCATGAGCCT GGACTGCCTCGTGGTGGGTGGGCCCCGGGAGTTCAACGTGACAGTGACTG TGAGAAATGATGGTGAGGACTCCTACAGGACACAGGTCACCTTCTTCTTC CCGCTTGACCTGTCCTACCGGAAGGTGTCCACACTCCAGAACCAGCGCTC ACAGCGATCCTGGCGCCTGGCCTGTGAGTCTGCCTCCTCCACCGAAGTGT CTGGGGCCTTGAAGAGCACCAGCTGCAGCATAAACCACCCCATCTTCCCG GAAAACTCAGAGGTCACCTTTAATATCACGTTTGATGTAGACTCTAAGGC TTCCCTTGGAAACAAACTGCTCCTCAAGGCCAATGTGACCAGGTGCTCTC TGCTACCAGGCTTCTGCAGGCAGTTGCCCGTCTGACGCCCCAGCCCCTGG CCCATGGTGGGCCTTTGCCCTTTGCCCACTGGTTCTCCCTTCAACTCATT TGTTCACTCAGCAAACACTCACTGACCACCCACCACGTGCTGGGCCTTGT GCTGAGTGCTGGTGGGATGGTGGTGGATCAGACGATAGTGGTTCCTGCCC TCTCGGAGATGATAATTTAGTGGCAAAGACAGACAAGAAATCTAGCCATT AATCTTGCATCCATCTCAAATCCAGTATGAGATGCAAGATTAGATGGGGG ACGGCCAGTGTTCTTGGGAGTTTGGTGTTCAGAGAAGATTCCTAAAGAAA ATATATTTAGGAGCTGGGCGTGCTGGCTCAAGCCTGTAATCCCAGCACTT TGGGAGGCTGAGGCAAAACAATTGCTCGAACCCAGGAGTTCAAAATCAGC CTGGACAACATATCAATACCCTGTTTCTAC

Gene structure information

H-Inv cluster ID		HIX0012987
Genomic location	Chromosome	16
	Location	16p11.2
	Position	31271288- 31338744
	Strand	+
Possible duplicated location(s)		NA
Gene structure		10 exon(s)
Database links	RefSeq	NM_000632;  NM_001145808;
	Ensembl	ENST00000287497;  ENST00000544665;
	Entrez Gene	Entrez Gene ID:3684;
	KEGG GENES	KEGG GENES(3684);
	GeneCard	ITGAM;  *GeneCards is provided free to academic non-profit institutions.
Related H-InvDB links		H-DBAS;  G-integra;  cDNA-genome alignment;

Predicted CDS information HIP ID HIP000029957 Predicted CDS 102..1235;  377[aa];  Orientation:+3;  Codon Adaptation Index (CAI). 0.794

MALRVLLLTALTLCHGFNLDTENAMTSHSQRIAGSKLSPRLQYFGQSLSG GQDLTMDGLVDLTVGAQGHVLLLRSQPVLRVKAIMEFNPREVARNVFECN DQVVKGKEAGEVRVCLHVQKSTRDRLREGQIQSVVTYDLALDSGRPHSRA VFNETKNSTRRQTQVLGLTQTCETLKLQLPNCIEDPVSPIVLRLNFSLVG TPLSAFGNLRPVLAEDAQRLFTALFPFEKNCGNDNICQDDLSITFSFMSL DCLVVGGPREFNVTVTVRNDGEDSYRTQVTFFFPLDLSYRKVSTLQNQRS QRSWRLACESASSTEVSGALKSTSCSINHPIFPENSEVTFNITFDVDSKA SLGNKLLLKANVTRCSLLPGFCRQLPV*

Motif information

	a.a. length	InterPro	Name
	22	IPR000413	Integrin alpha chain [Family]
	20	IPR000413	Integrin alpha chain [Family]
	289	IPR013649	Integrin alpha-2 [Domain]
	14	IPR000413	Integrin alpha chain [Family]

Gene function information

H-Inv ID		HIT000014463
H-Inv cluster ID		HIX0012987
Accession number		AK057856.1
CAGE tag ID		NA
EST ID		NA
Transcript feature		NO;  Splicing isoform
Coding potential		Protein coding;
Definition		Similar to Integrin alpha-M; CD11 antigen-like family member B; CR-3 alpha chain; Cell surface glycoprotein MAC-1 subunit alpha; Leukocyte adhesion receptor MO1; Neutrophil adherence receptor; AltName: CD_antigen=CD11b; Precursor;
Similarity category		Category: Similar to known protein(Category II).
		Similar to known protein (P11215)  [Identity/coverage = 100.0%/2.26%] to Homo sapiens (Human). protein.
Experimental evidence		Protein evidence
PubMed ID		1346576;  1683702;  2454931;  2457584;  2563162;  2833753;  3539202;  7867070;  8419480;  8747460;  9560195;  9687375;  12208882;  15194813;  15489334;  18204446;  18204448;  19159218;  ALL;
Gene family/group	H-Inv gene family/group ID	HIF0000158
	Gene family/group name	Putative Integrin alpha-2 (IPR013649).
	Evidence motif (InterPro) ID	IPR013649
Gene symbol/name	HGNC symbol	ITGAM
	HGNC aliases	"integrin, alpha M (complement component receptor 3, alpha; also known as CD11b (p170), macrophage antigen alpha polypeptide)"
	HGNC name	integrin, alpha M (complement component 3 receptor 3 subunit)
	DDBJ	NA
	UniProt	ITGAM
EC number		NA
GGDB (GlycoGene Database)	Gene symbol	NA
	Familly	NA
	Designation	NA
	Expression	NA
KEGG metabolic pathway		NA
Protein-protein interaction (PPI)	H-Inv protein ID	HIP000029957
	No. of interaction	NA
	Interaction partner(s)	NA
	BIND	NA
	DIP	NA
	MINT	NA
	HPRD	NA
	IntAct	NA
Database links	RefSeq	NM_000632;  NM_001145808;
	Ensembl	ENST00000287497;  ENST00000544665;
	Entrez Gene	Entrez Gene ID:3684;
	KEGG GENES	KEGG GENES(3684);
	GeneCard	ITGAM;  *GeneCards is provided free to academic non-profit institutions.
	etc	Human-Gene diversity Of Life-style related Diseases;
Curation status		Auto-annotated
Notes		NA
Related H-InvDB links		Putative Integrin alpha-2 (IPR013649). Similarity Search Tool;  TACT;

fRNAdb (The functional RNA database) : overlapping fRNAdb entries with H-InvDB transcripts based on the location of the genome.

NA

Gene ontology information

Biological process	cell adhesion (GO:0007155);
Cellular component	integrin complex (GO:0008305);

Subcellular localization information

Last modified:20-Apr-2012

WoLF PSORT	extracellular;
Target P	signal peptide
SOSUI	soluble protein
TMHMM	soluble protein
PTS1	Not targeted
Related H-InvDB links	LIFEdb;  JRE-1.4.0 or later is required. Download JRE at Sun's web site.

Protein structure information (GTOP)

Last modified:20-Apr-2012

Start End PDB_ID E-value Identity Coverage SCOP_ID 26 76 1jv2A4 3e-08 33.3 51/100 b.69.8.1 77 232 1jv2A1 3e-26 20.1 154/160 b.1.15.1 234 363 1jv2A2 6e-23 16.7 120/139 b.1.15.1

Related H-InvDB links GTOP

Gene expression information

Last modified:20-Apr-2012

Tissue-specific expression			NA
Probe information	AceGene		NA
	Affymetrix GeneChip	HG-Focus	NA
		HG-U133	205785_at;
		HG-U133A	205785_at;
		HG-U133A_2	205785_at;
		HG-U133B	NA
		HG-U133_Plus_2	205785_at;
		HG-U95	NA
		HG-U95A	NA
		HG-U95B	NA
		HG-U95C	NA
		HG-U95D	NA
		HG-U95E	NA
		HG-U95Av2	NA
		HuEx-1_0	3656991;  3656992;  3656993;  3657011;  3657012;  3657013;  3657014;  3657015;  3657017;  3657018;  3657020;  3657021;  3688340;
		HuGeneFL	NA
	Agilent	Human 1A Oligo Microarray:PGID215	NA
		Whole Human Genome Oligo Microarray:PGID247	NA
Related H-InvDB links			H-ANGEL;  DNAProbeLocator;

Disease/pathology information

Last modified:20-Apr-2012

Disease relation		Disease name: {Systemic lupus erythematous, association with susceptibility to, 6} (609939);
Related information in OMIM		OMIM ID:  120980;  Title: INTEGRIN, ALPHA-M
Co-localized orphan diseases		OMIM ID:  156850;  605013;  605021;  606668;  607339;  608558;  608903;  610260;
Disease related mutation		NA
Literature-Extracted GENe-Disease Associations (LEGENDA)	Gene name	Entrez Gene ID:(3684)
	Disease	Entrez Gene ID:(3684)
	Substance	Entrez Gene ID:(3684)
Related H-InvDB links		DiseaseInfo Viewer;  LEGENDA;

Polymorphism (SNP, indel), microsatellite (Short Tandem Repeat, STR) and repeat information

Single Nucleotide Polymorphism (SNP) and indel  Location Variation dbSNP ID Strand CDS/UTR Translation 64 .. 64 C/T rs41408845 + 5'UTR 263 .. 263 C/A rs77434675 + CDS Synonymous[Leu54Leu] 285 .. 285 C/T rs8056264 + CDS Synonymous[Leu62Leu] 428 .. 428 C/T rs1143681 + CDS Synonymous[Ala109Ala] 608 .. 608 C/A rs118095734 + CDS Synonymous[Thr169Thr] 965 .. 965 C/A rs3087445 + CDS Synonymous[Ser288Ser] 981 .. 981 A/C rs78048000 + CDS Nonsynonymous[Thr294Pro] 983 .. 983 A/G rs1143682 + CDS Synonymous[Thr294Thr] 1057 .. 1057 C/T rs1143683 + CDS Nonsynonymous[Ala319Val] 1627 .. 1627 C/G rs76939857 + 3'UTR 1680 .. 1680 C/A rs117882778 + 3'UTR  Microsatellite (Short Tandem Repeat, STR) No data available  Microsatellite: Human-Gene diversity Of Life-style related Diseases (H-GOLD) No data available

Repeat  Type Start End Strand L2b 1298 1453 - AluJo 1563 1679 + Database links Human-Gene diversity Of Life-style related Diseases(H-GOLD);  Related H-InvDB links VaryGene;  Repeat Mask Viewer;