Variant report

Variant	rs318029
Chromosome Location	chr5:41409399-41409400
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:41404307..41406613-chr5:41408825..41411220,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs13155537	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs161088	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1613321	0.85[CEU][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs178466	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1817334	1.00[CEU][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2445889	1.00[ASN][1000 genomes]
rs318030	1.00[CEU][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs318031	0.90[CEU][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs318035	0.91[CEU][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs318036	0.91[CEU][hapmap];0.96[EUR][1000 genomes]
rs318038	0.91[CEU][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs319002	0.91[CEU][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs319003	1.00[ASN][1000 genomes]
rs319004	1.00[CEU][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs319005	0.87[YRI][hapmap]
rs319007	0.91[CEU][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs319009	0.91[CEU][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs319011	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs319012	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs320604	1.00[ASN][1000 genomes]
rs453636	0.91[CEU][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62360428	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62360566	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62360568	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62360569	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62360573	1.00[EUR][1000 genomes]
rs638701	0.91[CEU][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs897807	0.91[CEU][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1851387	chr5:41336050-41423631	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv1024631	chr5:41341979-41427953	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:41392400-41409400	Weak transcription	Right Ventricle	heart
2	chr5:41404000-41412000	Enhancers	Fetal Heart	heart
3	chr5:41404800-41409800	Enhancers	Fetal Intestine Large	intestine
4	chr5:41405400-41410600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr5:41405800-41410000	Enhancers	Fetal Intestine Small	intestine
6	chr5:41407200-41409400	Weak transcription	Duodenum Mucosa	Duodenum
7	chr5:41407400-41410600	Weak transcription	Pancreas	Pancrea
8	chr5:41408200-41409600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr5:41408200-41409600	Enhancers	HMEC	breast
10	chr5:41408200-41410000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr5:41408200-41410000	Enhancers	Muscle Satellite Cultured Cells	--
12	chr5:41408400-41409600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr5:41408400-41409800	Enhancers	NHDF-Ad	bronchial
14	chr5:41408400-41409800	Enhancers	Osteobl	bone
15	chr5:41408400-41410000	Enhancers	NHLF	lung
16	chr5:41408600-41409600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr5:41408800-41409600	Enhancers	Small Intestine	intestine
18	chr5:41408800-41409600	Enhancers	NH-A	brain
19	chr5:41408800-41409800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr5:41408800-41409800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
21	chr5:41408800-41410000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr5:41408800-41410000	Flanking Active TSS	A549	lung
23	chr5:41409000-41409400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr5:41409000-41409600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr5:41409000-41409600	Enhancers	Ovary	ovary
26	chr5:41409000-41409600	Enhancers	Hela-S3	cervix
27	chr5:41409000-41409600	Enhancers	HepG2	liver
28	chr5:41409000-41409600	Enhancers	HSMM	muscle
29	chr5:41409200-41409800	Enhancers	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links