Variant report

Variant	rs28369797
Chromosome Location	chr1:171154418-171154419
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10912559	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs28369800	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28369869	1.00[AFR][1000 genomes]
rs28369880	1.00[AFR][1000 genomes]
rs28369899	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28369907	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28369908	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28369911	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28384824	0.94[AFR][1000 genomes]
rs56395556	1.00[EUR][1000 genomes]
rs61098520	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6661174	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs6664553	1.00[EUR][1000 genomes]
rs6671692	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs6672456	1.00[EUR][1000 genomes]
rs6701702	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs73032532	1.00[EUR][1000 genomes]
rs74122248	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74122251	1.00[EUR][1000 genomes]
rs74122253	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74122277	1.00[EUR][1000 genomes]
rs74122278	1.00[EUR][1000 genomes]
rs74122279	1.00[EUR][1000 genomes]
rs74122288	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74122291	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74122299	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74122301	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74122302	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7517460	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs7536646	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs7536745	1.00[GIH][hapmap];1.00[EUR][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	nsv1001228	chr1:170885787-171452579	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
2	esv14617	chr1:171016086-171726961	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv1005902	chr1:171036690-171254916	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
4	nsv535203	chr1:171036690-171254916	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
5	esv10193	chr1:171128845-171414611	Weak transcription Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:171153400-171159000	Active TSS	Aorta	Aorta
2	chr1:171153600-171155000	Enhancers	Fetal Stomach	stomach
3	chr1:171153800-171154800	Enhancers	Brain Germinal Matrix	brain
4	chr1:171154000-171154600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr1:171154000-171159600	Active TSS	Breast Myoepithelial Primary Cells	Breast
6	chr1:171154200-171154600	Enhancers	Osteobl	bone
7	chr1:171154200-171154800	Active TSS	Brain Anterior Caudate	brain
8	chr1:171154200-171155000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr1:171154200-171155000	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr1:171154200-171155200	Flanking Active TSS	Fetal Lung	lung
11	chr1:171154200-171156600	Active TSS	Stomach Smooth Muscle	stomach
12	chr1:171154200-171156600	Active TSS	NHLF	lung
13	chr1:171154200-171157400	Active TSS	Adipose Nuclei	Adipose
14	chr1:171154200-171158800	Active TSS	Psoas Muscle	Psoas
15	chr1:171154200-171159000	Active TSS	Left Ventricle	heart
16	chr1:171154200-171160800	Active TSS	Right Atrium	heart
17	chr1:171154400-171154600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr1:171154400-171154800	Enhancers	HUES6 Cell Line	embryonic stem cell
19	chr1:171154400-171154800	Active TSS	Duodenum Smooth Muscle	Duodenum
20	chr1:171154400-171154800	Active TSS	Ovary	ovary
21	chr1:171154400-171155000	Active TSS	Brain Hippocampus Middle	brain
22	chr1:171154400-171155000	Active TSS	Colon Smooth Muscle	Colon
23	chr1:171154400-171155000	Active TSS	Rectal Smooth Muscle	rectum
24	chr1:171154400-171155000	Active TSS	Skeletal Muscle Female	skeletal muscle
25	chr1:171154400-171156600	Active TSS	Esophagus	oesophagus
26	chr1:171154400-171156600	Active TSS	Lung	lung
27	chr1:171154400-171156600	Active TSS	Skeletal Muscle Male	skeletal muscle
28	chr1:171154400-171156800	Active TSS	Right Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links