Variant report

Variant	rs10236859
Chromosome Location	chr7:138251240-138251241
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:138143492..138146637-chr7:138248575..138251275,3	MCF-7	breast:
2	chr7:138145044..138147071-chr7:138248876..138251719,2	K562	blood:
3	chr7:138245855..138248023-chr7:138249211..138253236,3	K562	blood:

Variant related genes	Relation type
ENSG00000122779	Chromatin interaction

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs10224063	1.00[AMR][1000 genomes]
rs10224459	0.89[AFR][1000 genomes]
rs10224559	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10226487	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10227148	1.00[AMR][1000 genomes]
rs10229259	1.00[AMR][1000 genomes]
rs10229430	1.00[AMR][1000 genomes]
rs10231698	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10232500	1.00[AMR][1000 genomes]
rs10232597	0.88[AFR][1000 genomes]
rs10234810	0.91[AFR][1000 genomes]
rs10237069	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10237544	0.91[AFR][1000 genomes]
rs10237720	0.94[AFR][1000 genomes]
rs10239129	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10239202	0.94[AFR][1000 genomes]
rs10239932	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10240387	1.00[AMR][1000 genomes]
rs10241288	0.91[AFR][1000 genomes]
rs10241942	0.94[AFR][1000 genomes]
rs10242105	0.94[AFR][1000 genomes]
rs10243069	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10245088	0.94[AFR][1000 genomes]
rs10248027	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10248255	1.00[AMR][1000 genomes]
rs10248604	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10249171	1.00[AMR][1000 genomes]
rs10253989	0.80[AFR][1000 genomes]
rs10254196	1.00[AMR][1000 genomes]
rs10254440	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10254935	0.85[AFR][1000 genomes]
rs10256094	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10256358	0.94[AFR][1000 genomes]
rs10256619	0.88[AFR][1000 genomes]
rs10256953	1.00[AMR][1000 genomes]
rs10258403	1.00[AMR][1000 genomes]
rs10259673	0.94[AFR][1000 genomes]
rs10261219	1.00[AMR][1000 genomes]
rs10261236	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10262919	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10267577	0.94[AFR][1000 genomes]
rs10268912	0.94[AFR][1000 genomes]
rs10272478	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10274764	1.00[AMR][1000 genomes]
rs10277465	0.94[AFR][1000 genomes]
rs10278741	0.94[AFR][1000 genomes]
rs10281429	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10281487	0.94[AFR][1000 genomes]
rs1073255	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11506000	1.00[AMR][1000 genomes]
rs11983193	1.00[AMR][1000 genomes]
rs13438570	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28361932	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28380017	0.89[AFR][1000 genomes]
rs28392567	0.91[AFR][1000 genomes]
rs28407067	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28435503	1.00[AMR][1000 genomes]
rs28480333	1.00[AMR][1000 genomes]
rs28498774	0.91[AFR][1000 genomes]
rs28502705	0.94[AFR][1000 genomes]
rs28514575	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28534820	0.94[AFR][1000 genomes]
rs28546247	1.00[AMR][1000 genomes]
rs28584756	0.94[AFR][1000 genomes]
rs28593099	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28598597	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28608602	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28653145	1.00[AMR][1000 genomes]
rs28673291	0.91[AFR][1000 genomes]
rs28688534	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28691741	1.00[AMR][1000 genomes]
rs28694658	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28707292	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28714460	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28729263	0.91[AFR][1000 genomes]
rs28762120	0.85[AFR][1000 genomes]
rs28764878	0.91[AFR][1000 genomes]
rs28816768	0.91[AFR][1000 genomes]
rs28822161	0.88[AFR][1000 genomes]
rs28824911	1.00[AMR][1000 genomes]
rs28850964	1.00[AMR][1000 genomes]
rs3847123	0.94[AFR][1000 genomes]
rs3847124	0.94[AFR][1000 genomes]
rs4329204	0.88[AFR][1000 genomes]
rs9986844	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831153	chr7:138078179-138265648	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
2	nsv1030956	chr7:138163169-138579519	Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Genic enhancers Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:138228400-138252600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr7:138235000-138257400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr7:138235800-138253000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr7:138235800-138253200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
5	chr7:138236000-138254200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr7:138237000-138251600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr7:138237000-138252400	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
8	chr7:138237200-138252600	ZNF genes & repeats	Dnd41	blood
9	chr7:138237400-138251400	ZNF genes & repeats	Primary B cells from cord blood	blood
10	chr7:138238400-138251400	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr7:138238400-138251400	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
12	chr7:138238400-138251400	ZNF genes & repeats	Duodenum Mucosa	Duodenum
13	chr7:138238400-138253600	ZNF genes & repeats	Fetal Intestine Small	intestine
14	chr7:138238600-138251600	ZNF genes & repeats	Brain Germinal Matrix	brain
15	chr7:138238600-138251800	ZNF genes & repeats	Fetal Muscle Leg	muscle
16	chr7:138238600-138252200	ZNF genes & repeats	Primary B cells from peripheral blood	blood
17	chr7:138239400-138252600	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
18	chr7:138242600-138272400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
19	chr7:138242800-138251400	Strong transcription	Primary T helper naive cells from peripheral blood	blood
20	chr7:138246200-138251400	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr7:138246200-138251600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
22	chr7:138246200-138252000	ZNF genes & repeats	Primary T cells from cord blood	blood
23	chr7:138246800-138251400	ZNF genes & repeats	H9 Cell Line	embryonic stem cell
24	chr7:138246800-138251400	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
25	chr7:138246800-138251400	ZNF genes & repeats	GM12878-XiMat	blood
26	chr7:138246800-138252600	ZNF genes & repeats	Fetal Lung	lung
27	chr7:138246800-138252800	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
28	chr7:138247200-138251400	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
29	chr7:138247600-138251400	ZNF genes & repeats	Primary T killer naive cells fromperipheralblood	blood
30	chr7:138247600-138251600	ZNF genes & repeats	Primary mononuclear cells fromperipheralblood	Blood
31	chr7:138247600-138252000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
32	chr7:138247800-138251400	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
33	chr7:138248000-138252000	ZNF genes & repeats	Fetal Intestine Large	intestine
34	chr7:138248000-138252200	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum
35	chr7:138248200-138251400	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
36	chr7:138248200-138251400	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr7:138249000-138251400	ZNF genes & repeats	HMEC	breast
38	chr7:138249000-138252400	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
39	chr7:138249200-138252400	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr7:138249400-138252400	ZNF genes & repeats	A549	lung
41	chr7:138249600-138251400	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
42	chr7:138249600-138251400	ZNF genes & repeats	HSMMtube	muscle
43	chr7:138250200-138252000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr7:138250200-138252000	Genic enhancers	HepG2	liver
45	chr7:138250200-138252200	Weak transcription	Placenta Amnion	Placenta Amnion
46	chr7:138250200-138252400	Weak transcription	Skeletal Muscle Female	skeletal muscle
47	chr7:138250200-138252400	Weak transcription	HSMM	muscle
48	chr7:138250200-138253800	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr7:138250200-138255200	Weak transcription	Hela-S3	cervix
50	chr7:138250200-138255600	Weak transcription	Muscle Satellite Cultured Cells	--

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