Variant report

Variant	rs2588827
Chromosome Location	chr14:68614441-68614442
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:68610876..68614482-chr14:68656921..68659073,4	MCF-7	breast:
2	chr14:68612521..68615403-chr14:68749154..68751195,2	MCF-7	breast:
3	chr14:68405927..68407979-chr14:68613878..68615812,2	MCF-7	breast:

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs1022978	0.95[EUR][1000 genomes]
rs11621638	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11628885	1.00[AFR][1000 genomes]
rs1274639	1.00[CHB][hapmap]
rs1274640	0.81[CEU][hapmap]
rs1274643	0.81[CEU][hapmap]
rs1274655	0.81[CEU][hapmap]
rs1274656	0.80[CEU][hapmap]
rs12889206	0.85[MEX][hapmap]
rs12894297	0.91[EUR][1000 genomes]
rs1298340	0.81[CEU][hapmap]
rs1314911	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1314914	0.81[CEU][hapmap]
rs1314916	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1467673	0.94[CEU][hapmap];0.83[GIH][hapmap];0.90[EUR][1000 genomes]
rs1555944	0.94[CEU][hapmap];0.81[GIH][hapmap];0.85[EUR][1000 genomes]
rs1555945	0.94[CEU][hapmap];0.95[EUR][1000 genomes]
rs17104908	0.86[GIH][hapmap];0.82[EUR][1000 genomes]
rs1951410	0.84[EUR][1000 genomes]
rs1952245	0.94[CEU][hapmap];0.86[GIH][hapmap];0.89[TSI][hapmap];0.96[EUR][1000 genomes]
rs1952246	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.92[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1958111	0.94[CEU][hapmap];0.86[GIH][hapmap];0.89[TSI][hapmap];0.96[EUR][1000 genomes]
rs1958112	0.94[CEU][hapmap];0.89[EUR][1000 genomes]
rs1958113	0.94[CEU][hapmap];0.96[EUR][1000 genomes]
rs1958115	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1958116	0.94[CEU][hapmap];0.91[EUR][1000 genomes]
rs1980850	0.94[CEU][hapmap];0.91[EUR][1000 genomes]
rs2038979	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2243905	0.94[CEU][hapmap];0.95[EUR][1000 genomes]
rs2254173	0.90[EUR][1000 genomes]
rs2478777	0.87[EUR][1000 genomes]
rs2588806	0.94[CEU][hapmap];0.95[EUR][1000 genomes]
rs2588807	0.94[CEU][hapmap];0.83[GIH][hapmap];0.89[TSI][hapmap];0.95[EUR][1000 genomes]
rs2588808	0.88[CEU][hapmap];0.94[EUR][1000 genomes]
rs2588813	0.94[CEU][hapmap];0.89[EUR][1000 genomes]
rs2588814	1.00[CEU][hapmap];0.86[GIH][hapmap];0.92[TSI][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2588815	0.94[CEU][hapmap];0.86[GIH][hapmap];0.89[TSI][hapmap];0.96[EUR][1000 genomes]
rs2588816	0.94[CEU][hapmap];0.96[EUR][1000 genomes]
rs2588818	0.94[CEU][hapmap];0.96[EUR][1000 genomes]
rs2588819	1.00[CEU][hapmap];0.88[TSI][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2588820	0.91[EUR][1000 genomes]
rs2588821	0.94[CEU][hapmap];0.83[GIH][hapmap];0.91[EUR][1000 genomes]
rs2588823	0.94[CEU][hapmap];0.89[EUR][1000 genomes]
rs2588824	0.90[EUR][1000 genomes]
rs2588825	0.94[CEU][hapmap];0.83[GIH][hapmap];0.90[EUR][1000 genomes]
rs2588826	0.93[EUR][1000 genomes]
rs2588828	0.94[CEU][hapmap];0.93[EUR][1000 genomes]
rs2588829	0.93[EUR][1000 genomes]
rs2588830	0.89[EUR][1000 genomes]
rs2588831	0.80[EUR][1000 genomes]
rs2588832	0.86[GIH][hapmap]
rs2588833	0.86[GIH][hapmap];0.85[EUR][1000 genomes]
rs2588834	0.96[GIH][hapmap];0.88[EUR][1000 genomes]
rs2767365	0.83[CEU][hapmap];0.96[GIH][hapmap];0.91[EUR][1000 genomes]
rs2767366	0.86[GIH][hapmap]
rs2767368	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.85[TSI][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2767379	0.95[EUR][1000 genomes]
rs2767382	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2767383	0.94[CEU][hapmap];0.95[EUR][1000 genomes]
rs2767384	0.94[CEU][hapmap];0.95[EUR][1000 genomes]
rs34558039	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs365934	0.82[EUR][1000 genomes]
rs372143	0.90[GIH][hapmap];0.82[EUR][1000 genomes]
rs373918	0.82[EUR][1000 genomes]
rs378408	0.82[EUR][1000 genomes]
rs401021	0.82[EUR][1000 genomes]
rs411547	0.82[EUR][1000 genomes]
rs419450	0.84[EUR][1000 genomes]
rs431649	0.86[GIH][hapmap];0.82[EUR][1000 genomes]
rs435620	0.82[EUR][1000 genomes]
rs437585	0.85[EUR][1000 genomes]
rs440627	0.84[EUR][1000 genomes]
rs445921	0.84[EUR][1000 genomes]
rs448445	0.84[EUR][1000 genomes]
rs6573817	0.94[CEU][hapmap];0.89[EUR][1000 genomes]
rs6573834	0.85[MEX][hapmap]
rs7141160	0.96[GIH][hapmap];0.84[EUR][1000 genomes]
rs7141450	0.84[EUR][1000 genomes]
rs7150454	1.00[LWK][hapmap];0.85[MEX][hapmap]
rs725453	0.81[CEU][hapmap]
rs72725154	1.00[ASN][1000 genomes]
rs72725158	1.00[ASN][1000 genomes]
rs72725160	1.00[ASN][1000 genomes]
rs72725163	1.00[ASN][1000 genomes]
rs72725173	1.00[ASN][1000 genomes]
rs8011527	0.89[EUR][1000 genomes]
rs8014524	0.84[EUR][1000 genomes]
rs959039	0.96[EUR][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	nsv869154	chr14:68366754-69041768	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv1048794	chr14:68614152-68649231	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:68601800-68614800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr14:68601800-68615600	Enhancers	HMEC	breast
3	chr14:68603800-68614600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr14:68603800-68614800	Enhancers	HSMM	muscle
5	chr14:68604200-68614800	Enhancers	NHLF	lung
6	chr14:68605000-68614800	Enhancers	Muscle Satellite Cultured Cells	--
7	chr14:68606800-68614800	Enhancers	NHDF-Ad	bronchial
8	chr14:68607200-68623600	Weak transcription	Ovary	ovary
9	chr14:68607600-68615000	Enhancers	NHEK	skin
10	chr14:68607800-68616600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr14:68609800-68614800	Enhancers	Skeletal Muscle Female	skeletal muscle
12	chr14:68612200-68615200	Weak transcription	Fetal Thymus	thymus
13	chr14:68612200-68616600	Weak transcription	Thymus	Thymus
14	chr14:68612600-68614800	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr14:68612600-68628000	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr14:68613000-68631200	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr14:68613200-68614800	Enhancers	Hela-S3	cervix
18	chr14:68613600-68615000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr14:68613600-68615000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr14:68613800-68615400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr14:68614000-68614600	Weak transcription	Primary T cells from cord blood	blood
22	chr14:68614000-68614800	Weak transcription	A549	lung
23	chr14:68614000-68615200	Weak transcription	Fetal Lung	lung
24	chr14:68614200-68614800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr14:68614200-68614800	Enhancers	HSMMtube	muscle
26	chr14:68614200-68622400	Weak transcription	Colon Smooth Muscle	Colon
27	chr14:68614400-68614600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr14:68614400-68614600	Enhancers	Pancreatic Islets	Pancreatic Islet
29	chr14:68614400-68624600	Weak transcription	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links