Reference SNP(refSNP) Cluster Report: rs28435845

Reference SNP(refSNP) Cluster Report: rs28435845

refSNP ID: rs28435845
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	125/129
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_015892.2:c.*2293T>C
NT_030059.12:g.44515898A>G

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss39722204 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs28435845 during BLAST analysis for the current build.

NCBI Assay ID	Handle\|Submitter ID	Validation Status	ss to rs Orientation /Strand	Alleles	5' Near Seq 30 bp	3' Near Seq 30 bp	Entry Date	Update Date	Build Added	Molecule Type	Freq Warning	Ancestral Allele	Success Rate
ss35189587	SSAHASNP\|TA-079.chr10_125757362		fwd/T	A/G	aacaaaaaggaacttcaataccatgttgtg	gaaatgctccaatttgctttggttttgaat	03/11/05		125	Genomic			unknown
ss39722204	ABI\|hCV176322		fwd/T	A/G	aacaaaaaggaacttcaataccatgttgtg	gaaatgctccaatttgctttggttttgaat	07/16/05	07/16/05	126	Genomic			unknown

Fasta sequence (Legend)

 ACCTCGTCTC TCAGCAGCCA GCACAGCTGT AACTCCTCTT TACACAGAGC CTGCACAACT
 CGAGCAGGTG CGACACTAAA CCACTGCGAT TCACTCATGC ACCAGGAAGA GCTTGGCTGC
 AGAGGAAGAG CACGCGCTCC ACAGGCGTCA CTCTTATGGG TCCATCTTTA ATTATGTTAA
 ATATTAATAA AAGTACAGCG TAACTGCGAT TCACTTAACA TACCTTACAG GACTAAGGGA
 GTACAATTTA ACACGGTCAC AACTTTTGAG AACAAAAAGG AACTTCAATA CCATGTTGTG
 R
 GAAATGCTCC AATTTGCTTT GGTTTTGAAT GGCAGGCTCG AGAACCACCG CCCAGAACGG
 AACCTATTCT GTCAGCAAGA GCCGGGCCTC GAATGAGAGG AAGCAGAGGC AGCCGAAGTG
 CCCTCTGGAG AAAGGCCCCT GGAGGGAAAA ACCATGTCTG GATGGCATTG AGTGGCACAG
 AAGGGATGGG ACTGCATATA TAAAAAAGAT CCGCATAATA AACCAAATAA TATTGGAAAT
 AATACCTTCA GTAATACTTC TGTAAGAAGC AGAATTACAC CACATGTTAT TCACATGCAT

GeneView

GeneView via analysis of contig annotation: GALNAC4S-6ST B cell RAG associated protein

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_030059->NM_015892

function

HuRef

NW_001838008->NM_015892

function

Celera

NW_924884->NM_015892

function

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


reference	NT_030059->NM_015892->	44515898	reverse	4492	3' UTR

HuRef	NW_001838008->NM_015892->	112450	forward	4492	3' UTR

Celera	NW_924884->NM_015892->	36474690	reverse	4491	3' UTR

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs28435845 maps exactly once on NCBI human chromosome 10

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
10	NW_001838008.2	112450	119382483	minus	T	alt_assembly_8	HuRef	HuRef	view	300
10	NW_924884.1	36474690	119471873	plus	A	alt_assembly_1	Celera	Celera	view	300
10	NT_030059.12	44515898	125757362	plus	A	ref_assembly	reference	reference	view	300

NCBI Resource Links

Submitter-Referenced

dbSNP Blast Analysis
GenBank HTGS Finished:
AL683842.11 NC_000010.9

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
	UNKNOWN	UNKNOWN	UNKNOWN

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Revised: May 25, 2006 1:38 PM .