Variant report

Variant	rs17136690
Chromosome Location	chr7:16852634-16852635
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:16839844..16843226-chr7:16849835..16853685,4	MCF-7	breast:
2	chr7:16847748..16852819-chr7:16884544..16888713,8	MCF-7	breast:

Variant related genes	Relation type
ENSG00000106541	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10232481	0.91[EUR][1000 genomes]
rs10237749	0.91[EUR][1000 genomes]
rs10237754	0.82[CEU][hapmap];0.89[EUR][1000 genomes]
rs10253216	0.90[EUR][1000 genomes]
rs10263088	0.88[CEU][hapmap];0.93[EUR][1000 genomes]
rs10267666	0.93[EUR][1000 genomes]
rs10270767	0.93[EUR][1000 genomes]
rs10270773	0.93[EUR][1000 genomes]
rs10271138	0.93[EUR][1000 genomes]
rs10271320	0.93[EUR][1000 genomes]
rs10271392	0.91[EUR][1000 genomes]
rs10271396	0.93[EUR][1000 genomes]
rs10271919	0.82[CEU][hapmap];0.93[EUR][1000 genomes]
rs10275847	0.80[CEU][hapmap];0.91[EUR][1000 genomes]
rs10499478	0.82[CEU][hapmap];0.91[EUR][1000 genomes]
rs12333795	0.88[CEU][hapmap];0.91[EUR][1000 genomes]
rs12668575	0.87[EUR][1000 genomes]
rs12670802	0.87[EUR][1000 genomes]
rs12674158	0.91[EUR][1000 genomes]
rs13229674	1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[YRI][hapmap];0.81[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs1357992	0.91[EUR][1000 genomes]
rs1404966	0.87[CEU][hapmap];0.89[EUR][1000 genomes]
rs1404967	0.92[EUR][1000 genomes]
rs1404971	0.93[EUR][1000 genomes]
rs1404973	0.90[EUR][1000 genomes]
rs1404974	0.92[EUR][1000 genomes]
rs17136685	0.98[ASN][1000 genomes]
rs17136694	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2389706	0.89[EUR][1000 genomes]
rs28616715	0.93[EUR][1000 genomes]
rs28759358	0.93[EUR][1000 genomes]
rs4636100	0.90[EUR][1000 genomes]
rs59502733	0.89[EUR][1000 genomes]
rs6959114	0.80[CEU][hapmap];0.89[EUR][1000 genomes]
rs6966839	0.86[CEU][hapmap];0.91[EUR][1000 genomes]
rs6969266	0.92[EUR][1000 genomes]
rs6976544	0.91[EUR][1000 genomes]
rs6979112	0.93[EUR][1000 genomes]
rs706073	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs706075	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs706076	1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs706079	1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs706080	1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.82[AMR][1000 genomes];0.97[ASN][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	nsv887761	chr7:16834361-17732490	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv887762	chr7:16834361-17746628	Enhancers Genic enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv887763	chr7:16834361-17750811	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
4	nsv887764	chr7:16839835-17218800	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv887765	chr7:16839835-17750811	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
6	nsv1027284	chr7:16849986-17008167	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:16844600-16854800	Weak transcription	Small Intestine	intestine
2	chr7:16845400-16852800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr7:16848000-16858200	Enhancers	Stomach Mucosa	stomach
4	chr7:16849400-16853400	Enhancers	Fetal Intestine Large	intestine
5	chr7:16849400-16853400	Enhancers	Fetal Intestine Small	intestine
6	chr7:16849400-16857600	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr7:16850800-16854600	Weak transcription	HMEC	breast
8	chr7:16851000-16852800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr7:16851000-16852800	Enhancers	Osteobl	bone
10	chr7:16851400-16854400	Weak transcription	Duodenum Mucosa	Duodenum
11	chr7:16851600-16853400	Enhancers	Rectal Mucosa Donor 29	rectum
12	chr7:16851600-16853400	Enhancers	Monocytes-CD14+_RO01746	blood
13	chr7:16851800-16852800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr7:16851800-16853400	Enhancers	Muscle Satellite Cultured Cells	--
15	chr7:16851800-16856200	Weak transcription	Hela-S3	cervix
16	chr7:16851800-16856400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr7:16851800-16857200	Weak transcription	NH-A	brain
18	chr7:16851800-16858200	Enhancers	Rectal Mucosa Donor 31	rectum
19	chr7:16852000-16852800	Weak transcription	Colonic Mucosa	Colon
20	chr7:16852200-16852800	Enhancers	A549	lung
21	chr7:16852200-16853200	Enhancers	Primary hematopoietic stem cells short term culture	blood
22	chr7:16852400-16853400	Enhancers	Primary monocytes fromperipheralblood	blood
23	chr7:16852400-16854000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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