Reference SNP(refSNP) Cluster Report: rs308887

Reference SNP(refSNP) Cluster Report: rs308887

refSNP ID: rs308887
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	79/129
Map to Genome Build:	36.3

Allele
Variation Class:	SNP: single nucleotide polymorphism
RefSNP Alleles:	A/G
Ancestral Allele:	A
Clinical Association:	unknown

HGVS Names
NM_000842.1:c.2631-817A>G
NT_008984.17:g.505111T>C

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss1802206 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs308887 during BLAST analysis for the current build.

NCBI Assay ID	Handle\|Submitter ID	ss to rs Orientation /Strand	Alleles	5' Near Seq 30 bp	3' Near Seq 30 bp	Entry Date	Update Date	Build Added	Molecule Type	Success Rate
ss397013	KWOK\|OVLP-000621-234618	fwd/T	A/G	ggtggaagtgcaaaggagaaagagagagaa	ggccttcaaaaaacttgtcagtccctcaat	06/30/00	10/10/03	79	Genomic	99 %
ss722139	SC_JCM\|AC024733.5_222175	fwd/T	A/G	ggtggaagtgcaaaggagaaagagagagaa	ggccttcaaaaaacttgtcagtccctcaat	07/27/00	10/10/03	85	Genomic	unknown
ss945863	KWOK\|OVLP-000804-374071	fwd/T	A/G	ggtggaagtgcaaaggagaaagagagagaa	ggccttcaaaaaacttgtcagtccctcaat	09/01/00	10/10/03	86	Genomic	99 %
ss1802206	KWOK\|OVLP-000925-653226	fwd/T	A/G	ggtggaagtgcaaaggagaaagagagagaa	ggccttcaaaaaacttgtcagtccctcaat	10/05/00	10/10/03	87	Genomic	99 %
ss16097764	SC_SNP\|NT_008984.16_505111	rev/B	C/T	attgagggactgacaagttttttgaaggcc	ttctctctctttctcctttgcacttccacc	11/18/03	11/22/03	120	Genomic	unknown
ss38792076	ABI\|hCV569838	fwd/T	A/G	ggtggaagtgcaaaggagaaagagagagaa	ggccttcaaaaaacttgtcagtccctcaat	07/16/05	07/16/05	126	Genomic	unknown
ss88680396	BCMHGSC_JDW\|JWB-0455914	rev/B	C/T	attgagggactgacaagttttttgaaggcc	ttctctctctttctcctttgcacttccacc	02/26/08	02/27/08	129	Genomic	unknown

Fasta sequence (Legend)

 AGAGCTGTCT TGACTGAAAA TAACAGACCC CCTAGTAACA GAGATCTTGG ATTACTTTGT
 GATGGGAAAC TACACCAGAA TCTCTTCATA TAACATTCCT ggccagacgc agtggctcac
 gcctgtaatc ccaacacttt aggaggctga ggcaggttga tcacttgagg tcagcagttc
 tagaacagtc ttaccaacat ggtgaaaccc cgtatctact aaaaatacaa aattagctgg
 gcgtggtggc gcatgcctac aatcccagct tctcaggaag ctgaggcagg agattcgctt
 gaatcccaga ggccgagggt gcagtgagct gagatggcgc cactgcactt cagcctgggc
 aacaagagca aaactccgtc taaaaaacaa aaaataaaaa aaaaaTCTTG AGTGTCAGGC
 CACATTCTCT GACCTTTGTA AAGTTTCTGA AAGAACGTCT GCAGCTTCAG AAGCTATTGT
 GTCAGCTTTT AGTGGTAAGG AGAGGTACTA GGGCGCTGAG GCTGAGGCAC CAATCACATC
 TTGAGAGTGG CTTTCAGACC CCATGGTGGA AGTGCAAAGG AGAAAGAGAG AGAA
 R
 GGCCTTCAAA AAACTTGTCA GTCCCTCAAT ATTCACCAGG ATCCTAATTT GAGATCACTC
 TGCTAAGTGC CGAAGGCATT ATACAGCACT CTCACTCATT GAACTGTTAT TCAAGTACAG
 AACTCAAAAT ACATTTGTGA GGTGAATTTC TGTGAAGTAA AGAAGCTCTC ATTAGAAATG
 TGTGTTCATT AAATTTTTAT

GeneView

GeneView via analysis of contig annotation: GRM5 glutamate receptor, metabotropic 5

View variations for gene:

Include clinically associated:

in gene region cSNP has frequency double hit

Group
Label

Contig->mRNA

Gene Model (contig mRNA transcript) Color Legend

reference

NT_008984->NM_000842

function

Group label	Contig-->mRNA-->Protein	Contig position	mRNA orientation	Function


reference	NT_008984->NM_000842->NP_000833	505111	reverse	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs308887 maps exactly once on NCBI human chromosome 11

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
11	NW_001838029.2	1271832	84482447	plus	A	alt_assembly_8	HuRef	HuRef	view	594
11	NW_925129.1	1275183	86388531	plus	A	alt_assembly_1	Celera	Celera	view	594
11	NT_008984.17	505111	87883137	minus	T	ref_assembly	reference	reference	view	594

NCBI Resource Links

Submitter-Referenced
GenBank
NT_008984 AC040976 AC040976.3

dbSNP Blast Analysis
GenBank HTGS Finished:	GenBank HTGS Draft:
AP003120.4	AP002966.1

Population Diversity

There is no frequency data.

Validation Summary:

Validation status

Marker displays
Mendelian segregation

PCR results confirmed
in multiple reactions

Homozygotes detected
in individual genotype data

DoubleHit found by: BCM_SSAHASNP

UNKNOWN

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Revised: May 25, 2006 1:38 PM .