Variant report

Variant	rs6895358
Chromosome Location	chr5:98361247-98361248
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:98263646..98265342-chr5:98360622..98362324,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000248489	Chromatin interaction

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10039507	1.00[CEU][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10040675	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10041263	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10041335	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10054523	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10055595	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10056842	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10056918	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10061406	0.90[CEU][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10062455	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10064594	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10065808	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10067635	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10067866	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10068003	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10068917	1.00[CEU][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10077697	1.00[CEU][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10085106	1.00[CEU][hapmap];0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10085145	1.00[CEU][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10479350	0.98[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10479351	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10479352	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10479353	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10479354	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11948998	0.90[CEU][hapmap];0.83[EUR][1000 genomes]
rs11952820	0.81[EUR][1000 genomes]
rs11953096	0.90[CEU][hapmap];0.83[EUR][1000 genomes]
rs11958835	0.90[CEU][hapmap];0.83[EUR][1000 genomes]
rs12332280	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12332340	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12332364	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12332383	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs161742	0.90[CEU][hapmap];0.98[EUR][1000 genomes]
rs17166414	0.89[CEU][hapmap];0.89[EUR][1000 genomes]
rs17166423	0.89[CEU][hapmap];0.89[EUR][1000 genomes]
rs17166428	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs17166439	0.89[CEU][hapmap];0.89[EUR][1000 genomes]
rs17166455	0.89[CEU][hapmap];0.91[EUR][1000 genomes]
rs17166484	0.95[EUR][1000 genomes]
rs17166575	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17166578	1.00[CEU][hapmap];0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2164986	0.89[EUR][1000 genomes]
rs28555343	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28656032	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2963709	0.90[CEU][hapmap];0.95[EUR][1000 genomes]
rs327810	0.85[EUR][1000 genomes]
rs36011435	0.89[EUR][1000 genomes]
rs44070	0.98[EUR][1000 genomes]
rs55780476	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55821667	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55854720	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56046686	0.89[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs56086412	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56096102	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56115002	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56153113	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56159022	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56160758	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56246849	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs56311403	0.91[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs56331326	0.85[EUR][1000 genomes]
rs56331947	0.95[EUR][1000 genomes]
rs56400831	0.89[EUR][1000 genomes]
rs58479016	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58771325	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6596659	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6866629	0.90[CEU][hapmap];0.81[EUR][1000 genomes]
rs6867271	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6880359	0.83[EUR][1000 genomes]
rs6883467	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6885458	0.80[AFR][1000 genomes]
rs6890358	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs727637	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs73776017	0.83[EUR][1000 genomes]
rs73776027	0.83[EUR][1000 genomes]
rs73776028	0.83[EUR][1000 genomes]
rs7708436	0.95[EUR][1000 genomes]
rs7719375	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7726329	0.83[EUR][1000 genomes]
rs7737402	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs9327950	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9327954	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9327955	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

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	nsv1024391	chr5:98355665-98653657	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv599118	chr5:98358191-99029453	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv599119	chr5:98358191-99315677	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:98353600-98361600	Weak transcription	Small Intestine	intestine
2	chr5:98356400-98361600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr5:98356400-98361800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr5:98356400-98362400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr5:98357000-98362000	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr5:98357400-98368400	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr5:98358200-98366800	Weak transcription	K562	blood
8	chr5:98360000-98361400	Enhancers	Rectal Mucosa Donor 31	rectum
9	chr5:98360000-98361800	Enhancers	Sigmoid Colon	Sigmoid Colon
10	chr5:98360000-98363200	Enhancers	Fetal Intestine Large	intestine
11	chr5:98360000-98363200	Enhancers	HepG2	liver
12	chr5:98360000-98363400	Enhancers	Stomach Mucosa	stomach
13	chr5:98360200-98362800	Enhancers	Duodenum Mucosa	Duodenum
14	chr5:98360200-98362800	Enhancers	Pancreas	Pancrea
15	chr5:98360200-98363400	Enhancers	Fetal Intestine Small	intestine
16	chr5:98360200-98369000	Enhancers	Primary B cells from peripheral blood	blood
17	chr5:98360400-98362200	Enhancers	GM12878-XiMat	blood
18	chr5:98360400-98362800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr5:98360600-98362000	Enhancers	Colonic Mucosa	Colon
20	chr5:98360600-98362400	Enhancers	Primary B cells from cord blood	blood
21	chr5:98360800-98363000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr5:98361000-98361400	Enhancers	HUES48 Cell Line	embryonic stem cell
23	chr5:98361000-98361400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
24	chr5:98361000-98361400	Enhancers	HUVEC	blood vessel
25	chr5:98361000-98361600	Flanking Active TSS	A549	lung
26	chr5:98361000-98361800	Enhancers	Primary neutrophils fromperipheralblood	blood
27	chr5:98361000-98362600	Enhancers	Primary hematopoietic stem cells	blood
28	chr5:98361000-98362600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr5:98361000-98362800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr5:98361000-98363000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr5:98361200-98361400	Enhancers	ES-I3 Cell Line	embryonic stem cell
32	chr5:98361200-98361400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr5:98361200-98361600	Enhancers	Fetal Kidney	kidney
34	chr5:98361200-98361600	Enhancers	Fetal Stomach	stomach
35	chr5:98361200-98361800	Flanking Active TSS	Liver	Liver
36	chr5:98361200-98361800	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
37	chr5:98361200-98362400	Enhancers	Primary hematopoietic stem cells short term culture	blood
38	chr5:98361200-98362600	Enhancers	Dnd41	blood
39	chr5:98361200-98363000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr5:98361200-98363600	Enhancers	Adipose Nuclei	Adipose
41	chr5:98361200-98364400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
42	chr5:98361200-98368000	Weak transcription	Osteobl	bone

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