Reference SNP(refSNP) Cluster Report: rs9435649

Reference SNP(refSNP) Cluster Report: rs9435649

refSNP ID: rs9435649
Organism:	human (Homo sapiens)
Molecule Type:	Genomic
Created/Updated in build:	119/129
Map to Genome Build:	36.3

Allele
Variation Class:	SNP: single nucleotide polymorphism
RefSNP Alleles:	C/T
Ancestral Allele:	Not available
Clinical Association:	unknown

HGVS Names
NM_014675.3:c.2836+304C>T
NT_004610.18:g.100067C>T

Links

SNP Details are organized in the following sections:

Submitter records for this RefSNP Cluster

The submission ss13031829 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs9435649 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
ss13031829	SC_SNP\|NT_030584.9_100067		fwd/B	C/T	acggtgcctggctgagtcaacagtaactgc	gttcatcggtcatcaggcctgttagtctga	10/22/03	10/31/03	119	Genomic			unknown

Fasta sequence (Legend)

 ACCCTGACTG GTACGAGGGG CTGGGGACTT GGGGGGAACA CCAGGTTCCA GCCCAGACTG
 CAGCCTCCCA AGGTCTGGGG TCTcacagaa gttgggagca ctggagtagg agtctggctg
 gcctgggttc cagtcctgtg ccaccactta gatctcacct tcccttgagc aagccccttt
 cctctctggg ctgcagattc ctcagctgat gattggaggt ggcaatgccc accttctaag
 cctgttgcca ggatgacgtg ggaaaagcgt gtaaggccgt ggcacggtgc ctggcTGAGT
 CAACAGTAAC TGC
 Y
 GTTCATCGGT CATCAGGCCT GTTAGTCTGA GTTCTCTGTG CTTTTCAGAT GACTCTCTTG
 GCCCCAGAAT CCCAGCCCCA CTTCCCTGCA CCGTTCCCAT CCAGTCTCTG AACTCAGGGC
 TTCTTTCTGC TCACCTAACA TTAACTAAGC ACCTACTTGG GTCATGGAAA TTAATTTTCC
 TGTCCATGTA CACCTGAGCC

GeneView

GeneView via analysis of contig annotation: CROCC ciliary rootlet coiled-coil, rootletin

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_004610->NM_014675

function

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


reference	NT_004610->NM_014675->NP_055490	100067	forward	intron

GeneView: no link established by BLAST analysis of mRNA sequences

Integrated Maps:

NCBI MapViewer: rs9435649 maps exactly once on NCBI human chromosome 1

Chromosome	Contig accession	Contig position	Chromosome position	Hit orientation	Contig Allele	Assembly Type	Group label	Contig label	Neighbor SNP	SNP_flank position
1	NW_001838572.1	77081	15519704	plus	C	alt_assembly_8	HuRef	HuRef	view	313
1	NW_927841.1	74506	15598063	plus	C	alt_assembly_1	Celera	Celera	view	313
1	NT_004610.18	100067	17148312	plus	C	ref_assembly	reference	reference	view	313

NCBI Resource Links

Submitter-Referenced
GenBank
NT_030584

dbSNP Blast Analysis
GenBank HTGS Finished:	GenBank HTGS Draft:
AL049569.13	BX284623.2

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 .