Reference SNP(refSNP) Cluster Report: rs155797

Reference SNP(refSNP) Cluster Report: rs155797

refSNP ID: rs155797
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:	C/G
Ancestral Allele:	G
Clinical Association:	unknown

HGVS Names
NM_015043.3:c.118+652C>G
NM_198868.2:c.118+652C>G
NT_023133.12:g.24143638G>C

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss44654155 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs155797 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
ss320423	KWOK\|OVLP-000621-20965	fwd/B	C/G	caagggtgcctgtccagcttcatcctgtgt	atggtggcacccgggcccacaaagggccac	06/30/00	10/10/03	85	Genomic	99 %
ss320470	KWOK\|OVLP-000621-21084	fwd/B	C/G	caagggtgcctgtccagcttcatcctgtgt	atggtggcacccgggcccacaaagggccac	06/30/00	10/10/03	79	Genomic	99 %
ss350672	KWOK\|OVLP-000621-113203	fwd/B	C/G	caagggtgcctgtccagcttcatcctgtgt	atggtggcacccgggcccacaaagggccac	06/30/00	10/10/03	79	Genomic	99 %
ss621727	SC_JCM\|AC023924.2_157845	fwd/B	C/G	caagggtgcctgtccagcttcatcctgtgt	atggtggcacccgggcccacaaagggccac	07/12/00	10/10/03	80	Genomic	unknown
ss1163540	KWOK\|OVLP-000804-512552	rev/T	C/G	gtggccctttgtgggcccgggtgccaccat	acacaggatgaagctggacaggcacccttg	09/02/00	10/10/03	86	Genomic	99 %
ss1167693	KWOK\|OVLP-000804-530285	fwd/B	C/G	caagggtgcctgtccagcttcatcctgtgt	atggtggcacccgggcccacaaagggccac	09/02/00	10/10/03	86	Genomic	99 %
ss1250885	KWOK\|OVLP-000804-528718	fwd/B	C/G	caagggtgcctgtccagcttcatcctgtgt	atggtggcacccgggcccacaaagggccac	09/02/00	10/10/03	86	Genomic	97 %
ss1780114	KWOK\|OVLP-000925-351079	rev/T	C/G	gtggccctttgtgggcccgggtgccaccat	acacaggatgaagctggacaggcacccttg	10/05/00	05/16/04	89	Genomic	99 %
ss1781519	KWOK\|OVLP-000925-375367	fwd/B	C/G	caagggtgcctgtccagcttcatcctgtgt	atggtggcacccgggcccacaaagggccac	10/05/00	10/10/03	89	Genomic	99 %
ss1829113	KWOK\|OVLP-000925-368512	fwd/B	C/G	caagggtgcctgtccagcttcatcctgtgt	atggtggcacccgggcccacaaagggccac	10/05/00	10/10/03	89	Genomic	97 %
ss11729014	WI_SSAHASNP\|chr5.NT_077451.2_2425319	fwd/B	C/G	caagggtgcctgtccagcttcatcctgtgt	atggtggcacccgggcccacaaagggccac	07/03/03	10/10/03	116	Genomic	unknown
ss19629777	CSHL-HAPMAP\|CSHL-HuDD-200402.chr5.NT_077451.3_2425319	fwd/B	C/G	caagggtgcctgtccagcttcatcctgtgt	atggtggcacccgggcccacaaagggccac	02/20/04	03/04/04	120	Genomic	unknown
ss20244821	CSHL-HAPMAP\|CSHL-HuFF-200402.chr5.NT_077451.3_2425319	fwd/B	C/G	caagggtgcctgtccagcttcatcctgtgt	atggtggcacccgggcccacaaagggccac	02/21/04	03/04/04	120	Genomic	unknown
ss44654155	ABI\|hCV2929395	fwd/	C/G	caagggtgcctgtccagcttcatcctgtgt	atggtggcacccgggcccacaaagggccac	07/19/05	07/19/05	126	Genomic	unknown

Fasta sequence (Legend)

 GCCTCCGTCT GCATCTGGCT ATTAGCTGCT CACACTGAAA ATCAGGATGA TTCACAGAAA
 ATGCTCTTGA TAAACTGGAC GACCTGGCAA CACTGGGACC GCAATCCTGT AGGGCAACAG
 TCGGTGCCCC GAAGAGCACA GGCACTGAGC CCGAGCCAGC CGGGCTCCTG CAGTGCTGGG
 CGCAGGCCCT GGAGCATGAG GGGCCCCGGA CACCACCTGC GGAGGGAGTG GCCTGTGGGC
 CTCCCCTGGA TCCCACAGGC CGCACGACTC CAAGGGTGCC TGTCCAGCTT CATCCTGTGT
 S
 ATGGTGGCAC CCGGGCCCAC AAAGGGCCAC CTTGGCGAGC TTGCAGGAAC ACCCTGTGCC
 GCTACCCACA GCCTTGGGTG CGCAGCTCTG AGAGCAGCCA GGAGCAGGAA AGGTGGGGGA
 GGAGAAGCTG GGGGAATGGG GGTGCGGCCA GCTCCAGGGA CCTCTGATCT TGCTAAAAGG
 GCGATACTTT GGTGAGATGG GCACGAAGAA GAGGGCAAAA GAAAACGTGC GCTGGCGTCA
 CCTGGCCCCT TAGAGGCACC TGGGGAAACT GAGGTGGAGG ATGAGGACAG GGCGGTCTCG

GeneView

GeneView via analysis of contig annotation: TBC1D9B TBC1 domain family, member 9B (with GRAM domain)

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_023133->NM_015043

function

reference

NT_023133->NM_198868

function

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


reference	NT_023133->NM_015043->NP_055858	24143638	reverse	intron

reference	NT_023133->NM_198868->NP_942568	24143638	reverse	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs155797 maps exactly once on NCBI human chromosome 5

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
5	NW_001838967.1	1862945	174058613	plus	G	alt_assembly_8	HuRef	HuRef	view	300
5	NW_922818.1	1856562	174959214	plus	G	alt_assembly_1	Celera	Celera	view	300
5	NT_023133.12	24143638	179266658	plus	G	ref_assembly	reference	reference	view	300

NCBI Resource Links

Submitter-Referenced
GenBank
NT_077451 AC010285 AC010313 AC010313.5 AC023924.2

dbSNP Blast Analysis

Population Diversity

	Sample Ascertainment				Genotypes	Alleles
ss#	Population	Individual Group	Chrom. Sample Cnt.	Source	HWP	C	G
ss1780114	CEPH		184	AF		0.360	0.640

Summary	Average Het.+/- std err:	Individual Count	Founders Count	Individual Overlap	Genotype Conflict
	0.461+/-0.134	0	0	0	0

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, NCBI

UNKNOWN

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Revised: May 25, 2006 1:38 PM .