Variant report

Variant	rs17161700
Chromosome Location	chr7:98977067-98977068
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr7:98976910..98979073-chr7:98989172..98991412,2	MCF-7	breast:
2	chr7:98975447..98980936-chr7:99003746..99008536,8	MCF-7	breast:
3	chr7:98927030..98929384-chr7:98976181..98977844,2	MCF-7	breast:
4	chr7:98975439..98979350-chr7:99003635..99008025,5	K562	blood:
5	chr7:98976344..98978332-chr7:98985918..98989033,3	MCF-7	breast:
6	chr7:98965082..98967314-chr7:98975254..98977961,2	K562	blood:
7	chr7:98976192..98977767-chr7:99011584..99014530,2	MCF-7	breast:
8	chr7:98975550..98978554-chr7:98995134..98998882,4	K562	blood:
9	chr17:66637981..66640873-chr7:98975754..98977781,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000106244	Chromatin interaction
ENSG00000130429	Chromatin interaction
ENSG00000106245	Chromatin interaction
ENSG00000239133	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10251282	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10279308	1.00[JPT][hapmap]
rs1045012	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11978089	1.00[JPT][hapmap]
rs17161726	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17854665	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2003499	1.00[JPT][hapmap]
rs2293256	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2404487	0.85[EUR][1000 genomes]
rs28377312	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[EUR][1000 genomes]
rs28460612	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28558950	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28668326	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28753399	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3138	1.00[CHB][hapmap]
rs34943973	0.85[EUR][1000 genomes]
rs3528	0.85[EUR][1000 genomes]
rs3823813	0.85[EUR][1000 genomes]
rs41385645	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs45441991	0.85[EUR][1000 genomes]
rs45448997	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs45451992	0.85[EUR][1000 genomes]
rs45461000	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs45492501	0.85[EUR][1000 genomes]
rs45529541	0.85[EUR][1000 genomes]
rs45555335	0.85[EUR][1000 genomes]
rs45592335	0.85[EUR][1000 genomes]
rs55927283	0.85[EUR][1000 genomes]
rs55942267	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs57832867	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59240302	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs59672032	0.85[EUR][1000 genomes]
rs6651108	0.84[MEX][hapmap];1.00[TSI][hapmap]
rs6955490	1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs6974831	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap]
rs73397447	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73397481	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73397499	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73401507	0.85[EUR][1000 genomes]
rs73401510	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73401516	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73403247	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73711280	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73711293	0.85[EUR][1000 genomes]
rs73711294	0.85[EUR][1000 genomes]
rs7805661	1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap]
rs917152	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs952319	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3433144	chr7:98777878-99060209	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	nsv831068	chr7:98819572-99006481	Weak transcription Active TSS Genic enhancers Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
3	nsv831069	chr7:98948128-99127584	Active TSS Genic enhancers Weak transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:98971000-98990400	Weak transcription	Fetal Kidney	kidney
2	chr7:98973200-98978800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr7:98973400-98977200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr7:98973400-98977200	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr7:98973400-98977200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr7:98973400-98977200	Weak transcription	Brain Cingulate Gyrus	brain
7	chr7:98973400-98977600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr7:98973400-98977600	Weak transcription	Brain Substantia Nigra	brain
9	chr7:98973400-98977600	Weak transcription	Fetal Heart	heart
10	chr7:98973400-98977600	Weak transcription	Small Intestine	intestine
11	chr7:98973400-98978400	Weak transcription	Psoas Muscle	Psoas
12	chr7:98973400-98978600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr7:98973400-98978800	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr7:98973400-98979000	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr7:98973400-98979200	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr7:98973400-98984000	Weak transcription	Aorta	Aorta
17	chr7:98973400-98984200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr7:98973400-98984200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr7:98973400-98984200	Weak transcription	Ovary	ovary
20	chr7:98973400-98984400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr7:98973400-98987400	Weak transcription	Brain Germinal Matrix	brain
22	chr7:98973400-98987800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr7:98973400-98989800	Weak transcription	Brain Angular Gyrus	brain
24	chr7:98973800-98977200	Weak transcription	Left Ventricle	heart
25	chr7:98974000-98977600	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr7:98974200-98978200	Weak transcription	Pancreas	Pancrea
27	chr7:98974600-98977200	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
28	chr7:98974800-98979800	Strong transcription	Fetal Intestine Small	intestine
29	chr7:98975000-98978400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr7:98975800-98977200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
31	chr7:98976000-98977400	Weak transcription	Lung	lung
32	chr7:98976000-98977600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr7:98976400-98977600	Weak transcription	Fetal Intestine Large	intestine
34	chr7:98976600-98977200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr7:98976600-98977200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr7:98976600-98977200	Enhancers	Fetal Thymus	thymus
37	chr7:98976600-98977200	Enhancers	Skeletal Muscle Male	skeletal muscle
38	chr7:98976600-98977200	Enhancers	NHDF-Ad	bronchial
39	chr7:98976600-98977200	Enhancers	NHLF	lung
40	chr7:98976600-98977200	Enhancers	Osteobl	bone
41	chr7:98976600-98977600	Genic enhancers	Dnd41	blood
42	chr7:98976600-98978200	Flanking Active TSS	Hela-S3	cervix
43	chr7:98976600-98978200	Enhancers	HepG2	liver
44	chr7:98976600-98978400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr7:98976600-98978600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
46	chr7:98976600-98978600	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
47	chr7:98976600-98978600	Enhancers	NH-A	brain
48	chr7:98976600-98978800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr7:98976600-98978800	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
50	chr7:98976600-98978800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood

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