Variant report

Variant	rs9900884
Chromosome Location	chr17:17891696-17891697
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:17887022..17888694-chr17:17890630..17892590,2	K562	blood:
2	chr17:17890335..17892275-chr17:17927712..17930130,2	MCF-7	breast:
3	chr17:17887029..17890800-chr17:17891200..17894562,3	MCF-7	breast:
4	chr17:17890810..17892818-chr17:17898808..17902213,3	K562	blood:
5	chr17:17890160..17893754-chr17:17940902..17943950,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000141034	Chromatin interaction
ENSG00000171953	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs16960878	1.00[EUR][1000 genomes]
rs16961971	1.00[EUR][1000 genomes]
rs16961993	1.00[EUR][1000 genomes]
rs16962003	1.00[EUR][1000 genomes]
rs28528721	1.00[EUR][1000 genomes]
rs28595155	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28615278	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4924814	1.00[EUR][1000 genomes]
rs4924815	1.00[EUR][1000 genomes]
rs4924816	1.00[EUR][1000 genomes]
rs4924818	1.00[EUR][1000 genomes]
rs4924819	1.00[EUR][1000 genomes]
rs4925107	1.00[EUR][1000 genomes]
rs4925111	1.00[EUR][1000 genomes]
rs4925113	1.00[EUR][1000 genomes]
rs59019513	1.00[EUR][1000 genomes]
rs59064231	1.00[EUR][1000 genomes]
rs59531660	1.00[EUR][1000 genomes]
rs59754425	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60492230	1.00[EUR][1000 genomes]
rs73295666	1.00[EUR][1000 genomes]
rs73979203	1.00[EUR][1000 genomes]
rs73979206	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73979207	1.00[EUR][1000 genomes]
rs73979241	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73979242	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73979247	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73981070	1.00[EUR][1000 genomes]
rs73981075	1.00[EUR][1000 genomes]
rs73981078	1.00[EUR][1000 genomes]
rs7405940	1.00[EUR][1000 genomes]
rs8081943	1.00[EUR][1000 genomes]
rs9889565	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9895191	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9897573	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9898044	1.00[EUR][1000 genomes]
rs9899537	1.00[EUR][1000 genomes]
rs9900947	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9908994	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9910488	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9944449	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531183	chr17:17571035-18205309	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	123 gene(s)	inside rSNPs	diseases
2	nsv916653	chr17:17651916-18454952	Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
3	nsv907766	chr17:17682484-17957348	Enhancers Strong transcription Flanking Active TSS Genic enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
4	nsv533142	chr17:17691726-18236686	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	116 gene(s)	inside rSNPs	diseases
5	nsv482879	chr17:17802463-17989273	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
6	nsv510701	chr17:17850474-17955485	Strong transcription Active TSS Flanking Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:17876400-17903200	Weak transcription	Gastric	stomach
2	chr17:17876600-17914600	Weak transcription	Aorta	Aorta
3	chr17:17876800-17891800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr17:17876800-17909400	Weak transcription	Brain Substantia Nigra	brain
5	chr17:17876800-17912000	Weak transcription	Colon Smooth Muscle	Colon
6	chr17:17877000-17891800	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr17:17877000-17900000	Weak transcription	Fetal Intestine Small	intestine
8	chr17:17877600-17893200	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr17:17881800-17908200	Weak transcription	Pancreas	Pancrea
10	chr17:17882600-17891800	Weak transcription	Spleen	Spleen
11	chr17:17883400-17893000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr17:17883600-17892600	Weak transcription	Esophagus	oesophagus
13	chr17:17884600-17897400	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr17:17885000-17891800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr17:17885000-17892000	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr17:17885000-17892600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr17:17886400-17893800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
18	chr17:17886800-17909400	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr17:17886800-17913000	Weak transcription	Fetal Lung	lung
20	chr17:17887000-17893200	Weak transcription	NHEK	skin
21	chr17:17887200-17893200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr17:17887200-17900800	Weak transcription	Left Ventricle	heart
23	chr17:17887600-17893000	Weak transcription	Stomach Mucosa	stomach
24	chr17:17888400-17897800	Weak transcription	Fetal Brain Female	brain
25	chr17:17889000-17907400	Weak transcription	Brain Anterior Caudate	brain
26	chr17:17889200-17892800	Weak transcription	A549	lung
27	chr17:17889400-17897800	Weak transcription	Right Ventricle	heart
28	chr17:17890000-17907400	Weak transcription	Brain Germinal Matrix	brain
29	chr17:17890600-17891800	Enhancers	Placenta	Placenta
30	chr17:17890800-17892400	Enhancers	Placenta Amnion	Placenta Amnion
31	chr17:17890800-17893800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr17:17891200-17892200	Strong transcription	Lung	lung
33	chr17:17891200-17892600	Strong transcription	Brain Angular Gyrus	brain
34	chr17:17891200-17892600	Strong transcription	Brain Hippocampus Middle	brain
35	chr17:17891200-17893000	Strong transcription	Ovary	ovary
36	chr17:17891200-17893600	Strong transcription	Stomach Smooth Muscle	stomach
37	chr17:17891200-17894000	Enhancers	Fetal Muscle Trunk	muscle
38	chr17:17891400-17892200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr17:17891400-17892600	Enhancers	HSMM	muscle
40	chr17:17891400-17892600	Enhancers	HSMMtube	muscle
41	chr17:17891400-17894000	Enhancers	Fetal Muscle Leg	muscle
42	chr17:17891600-17892400	Strong transcription	Brain Cingulate Gyrus	brain
43	chr17:17891600-17892600	Strong transcription	Fetal Stomach	stomach

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