Variant report

Variant	rs12251678
Chromosome Location	chr10:91114812-91114813
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10159717	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11203082	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11203083	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11203087	0.83[EUR][1000 genomes]
rs11203091	1.00[YRI][hapmap];0.83[EUR][1000 genomes]
rs11203093	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11203095	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11203100	0.85[YRI][hapmap]
rs12242873	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12243051	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12243721	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12243856	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12245646	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12250550	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12250610	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12252455	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12255221	1.00[AFR][1000 genomes]
rs12256540	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12259825	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12259887	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12263019	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12263584	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12267215	0.83[EUR][1000 genomes]
rs12268333	0.83[EUR][1000 genomes]
rs12269110	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59633641	1.00[EUR][1000 genomes]
rs7074809	1.00[EUR][1000 genomes]
rs7079179	1.00[EUR][1000 genomes]
rs7090951	1.00[EUR][1000 genomes]
rs7910157	1.00[EUR][1000 genomes]
rs7910817	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs7912070	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7919999	1.00[EUR][1000 genomes]
rs7922439	1.00[AMR][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	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv1041964	chr10:90861380-91378356	Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
4	nsv1040375	chr10:91022218-91153074	Enhancers Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	esv34085	chr10:91065949-91174175	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats 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	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91108600-91122200	Weak transcription	Spleen	Spleen
2	chr10:91112200-91115400	Weak transcription	Brain Germinal Matrix	brain
3	chr10:91112200-91116800	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr10:91112400-91116000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr10:91112400-91116600	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr10:91112400-91116800	Weak transcription	Fetal Stomach	stomach
7	chr10:91112400-91120000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr10:91112400-91122400	Weak transcription	Esophagus	oesophagus
9	chr10:91112400-91127400	Weak transcription	Left Ventricle	heart
10	chr10:91113000-91115000	Weak transcription	HMEC	breast
11	chr10:91113000-91115200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr10:91113000-91116000	Weak transcription	Fetal Muscle Leg	muscle
13	chr10:91113000-91116600	Weak transcription	GM12878-XiMat	blood
14	chr10:91113000-91116800	Weak transcription	Fetal Kidney	kidney
15	chr10:91113000-91119200	Weak transcription	Lung	lung
16	chr10:91113200-91115000	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr10:91113200-91115000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr10:91113200-91115400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr10:91113200-91115400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr10:91113200-91115400	Weak transcription	Fetal Lung	lung
21	chr10:91113200-91122200	Weak transcription	Placenta	Placenta
22	chr10:91113400-91115000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr10:91113400-91115000	Weak transcription	Osteobl	bone
24	chr10:91113400-91116000	Weak transcription	K562	blood
25	chr10:91113400-91116800	Weak transcription	Fetal Heart	heart
26	chr10:91114400-91117000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr10:91114600-91115200	Enhancers	NH-A	brain
28	chr10:91114600-91117200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr10:91114600-91117400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr10:91114800-91115000	Enhancers	iPS-15b Cell Line	embryonic stem cell
31	chr10:91114800-91116800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr10:91114800-91117200	Enhancers	NHLF	lung
33	chr10:91114800-91117400	Enhancers	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links