Variant report

Variant	rs11687868
Chromosome Location	chr2:151062253-151062254
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:151057410..151059855-chr2:151061591..151063993,2	K562	blood:
2	chr2:151059823..151062781-chr2:151071614..151074024,2	K562	blood:
3	chr2:151061173..151063090-chr2:151063200..151065679,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LYPD6-10	chr2:151062221-151062272	NONHSAT074921

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10170246	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10174836	0.97[EUR][1000 genomes]
rs10184785	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10190277	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10195650	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10207680	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1031212	1.00[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1031213	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1031214	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1031215	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1031216	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10930038	0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1155072	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11682154	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11694747	0.86[EUR][1000 genomes]
rs11886061	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11886070	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12692632	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12692633	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12692644	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12986816	0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12996112	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13024074	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13028397	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13419478	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1348741	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1374157	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2376603	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4260269	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4283445	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4295034	0.85[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4296450	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4318407	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4434022	0.85[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4435478	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4461280	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4464296	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4481007	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4560135	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4597551	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4597552	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4600677	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4667341	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4667343	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62170020	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6432680	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6432682	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6432683	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6432700	0.96[CEU][hapmap];0.82[CHB][hapmap];0.85[JPT][hapmap];0.96[EUR][1000 genomes]
rs6650776	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6733918	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7422660	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7557353	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7564853	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7566441	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7569176	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7575612	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7580941	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7581265	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7581723	1.00[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7586530	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7592745	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7600792	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7604483	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9678528	0.87[ASN][1000 genomes]
rs974902	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv995119	chr2:150556150-151294696	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1001838	chr2:150819672-151745876	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv535980	chr2:150819672-151745876	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
4	nsv469524	chr2:150927500-151076920	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv834412	chr2:151014270-151116638	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:151055800-151064600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr2:151060200-151064600	Weak transcription	Fetal Brain Female	brain
3	chr2:151060800-151062800	Enhancers	Fetal Intestine Small	intestine
4	chr2:151061000-151063000	Enhancers	Fetal Intestine Large	intestine
5	chr2:151061400-151064800	Weak transcription	Fetal Lung	lung
6	chr2:151061400-151064800	Weak transcription	Gastric	stomach
7	chr2:151061600-151062600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr2:151061600-151064400	Weak transcription	Adipose Nuclei	Adipose
9	chr2:151061600-151064600	Weak transcription	Colon Smooth Muscle	Colon
10	chr2:151061600-151065200	Weak transcription	NHDF-Ad	bronchial
11	chr2:151061600-151067000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr2:151061600-151067000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr2:151061600-151067000	Weak transcription	Ovary	ovary
14	chr2:151061800-151062800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr2:151061800-151063800	Weak transcription	Stomach Mucosa	stomach
16	chr2:151061800-151065200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr2:151061800-151067000	Weak transcription	Osteobl	bone
18	chr2:151061800-151067200	Weak transcription	NHLF	lung
19	chr2:151062000-151064600	Weak transcription	Stomach Smooth Muscle	stomach
20	chr2:151062000-151065800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr2:151062200-151063600	Weak transcription	Sigmoid Colon	Sigmoid Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links