Variant report

Variant	rs7086946
Chromosome Location	chr10:27377363-27377364
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RFX5	chr10:27377069-27377663	IMR90	lung:	n/a	n/a
2	RFX5	chr10:27377180-27377817	HepG2	liver:	n/a	n/a
3	JUND	chr10:27377215-27377542	HepG2	liver:	n/a	chr10:27377383-27377394 chr10:27377384-27377393 chr10:27377383-27377395 chr10:27377385-27377393 chr10:27377386-27377393
4	RFX5	chr10:27377241-27377517	Hela-S3	cervix:	n/a	n/a
5	FOS	chr10:27377361-27377426	MCF10A-Er-Src	breast:	n/a	chr10:27377384-27377393 chr10:27377383-27377395 chr10:27377385-27377393 chr10:27377386-27377393
6	RFX5	chr10:27377285-27377450	K562	blood:	n/a	n/a
7	MAFK	chr10:27377295-27377449	HepG2	liver:	n/a	chr10:27377383-27377393 chr10:27377378-27377393 chr10:27377383-27377392
8	FOS	chr10:27377346-27377451	MCF10A-Er-Src	breast:	n/a	chr10:27377384-27377393 chr10:27377383-27377395 chr10:27377385-27377393 chr10:27377386-27377393

Variant related genes	Relation type
RNU6-490P	TF binding region

Extended variants
information (count: 111 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:111)

rs_ID	r²[population]
rs1002351	0.86[JPT][hapmap]
rs10159601	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10443967	0.82[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs10764670	0.92[ASW][hapmap];1.00[CEU][hapmap];0.86[LWK][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.83[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs10764681	0.85[EUR][1000 genomes]
rs10764682	1.00[CEU][hapmap];0.90[CHB][hapmap];0.88[JPT][hapmap];0.85[EUR][1000 genomes]
rs10764687	0.92[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10829175	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829177	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829178	0.82[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs10829179	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829182	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829187	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10829189	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10829196	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10829209	0.82[CHB][hapmap];0.88[JPT][hapmap]
rs11015444	0.87[ASN][1000 genomes]
rs11015448	0.82[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs11015459	0.82[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11015462	0.90[ASN][1000 genomes]
rs11015465	0.90[ASN][1000 genomes]
rs11015466	0.90[ASN][1000 genomes]
rs11015470	0.90[ASN][1000 genomes]
rs11015471	0.90[ASN][1000 genomes]
rs11015476	0.90[ASN][1000 genomes]
rs11015478	0.90[ASN][1000 genomes]
rs11015479	0.82[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs11015483	0.90[ASN][1000 genomes]
rs11015490	0.85[ASN][1000 genomes]
rs11015491	0.90[ASN][1000 genomes]
rs11015492	0.81[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs11015493	0.90[ASN][1000 genomes]
rs11015494	0.90[ASN][1000 genomes]
rs11015495	0.82[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11015496	0.90[ASN][1000 genomes]
rs11015497	0.90[ASN][1000 genomes]
rs11015498	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11015499	0.90[ASN][1000 genomes]
rs11015500	0.90[ASN][1000 genomes]
rs11015501	0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs11015502	0.82[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs11015507	0.91[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11015513	0.81[YRI][hapmap]
rs11015524	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11015562	0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11015599	0.94[YRI][hapmap]
rs11015602	0.83[ASW][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap]
rs11015612	0.82[CHB][hapmap];0.85[JPT][hapmap]
rs11015614	0.88[JPT][hapmap]
rs11015615	0.83[CHD][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap]
rs11813101	0.81[CHB][hapmap]
rs11816764	0.82[CHB][hapmap];0.88[JPT][hapmap]
rs11819631	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12218864	1.00[MEX][hapmap]
rs12240963	0.83[CHD][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap]
rs12243607	0.83[CHD][hapmap];0.88[JPT][hapmap]
rs12244182	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12250059	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12251316	0.83[CHD][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap]
rs12257786	0.88[JPT][hapmap];1.00[MEX][hapmap]
rs12259138	0.81[ASW][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap]
rs12259499	0.83[CHD][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap]
rs12263872	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12266594	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12354715	0.82[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12355227	0.87[ASN][1000 genomes]
rs12355949	0.87[ASN][1000 genomes]
rs12357873	0.92[ASN][1000 genomes]
rs12358854	0.90[ASN][1000 genomes]
rs12359281	0.91[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs1557163	0.88[JPT][hapmap]
rs1557164	0.88[JPT][hapmap]
rs1557166	0.88[JPT][hapmap]
rs2274742	0.82[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2275751	0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2297148	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3780923	0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs3781097	0.87[ASN][1000 genomes]
rs3818962	0.82[CHB][hapmap];0.83[CHD][hapmap];0.88[JPT][hapmap]
rs3818968	0.82[CHB][hapmap];0.83[CHD][hapmap];0.88[JPT][hapmap]
rs3824692	0.92[ASN][1000 genomes]
rs4747582	0.92[ASN][1000 genomes]
rs4749220	0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs61081993	0.87[ASN][1000 genomes]
rs61216393	0.88[ASN][1000 genomes]
rs6482590	0.82[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs6482612	0.88[JPT][hapmap]
rs7068463	0.83[ASW][hapmap];0.82[CHB][hapmap];0.83[CHD][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap]
rs7069127	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs7069761	0.82[CHB][hapmap];0.88[JPT][hapmap]
rs7072412	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs7080104	0.82[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7083360	0.90[ASN][1000 genomes]
rs7083739	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7084515	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs7087198	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs7096070	0.87[ASN][1000 genomes]
rs7358044	0.86[JPT][hapmap]
rs7358057	0.88[JPT][hapmap]
rs7897698	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7900802	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs7902900	0.88[JPT][hapmap]
rs7906528	0.88[JPT][hapmap]
rs7908050	0.82[CHB][hapmap];0.88[JPT][hapmap]
rs7909359	0.82[CHB][hapmap];0.88[JPT][hapmap]
rs7910142	0.82[CHB][hapmap];0.88[JPT][hapmap]
rs7920178	0.90[EUR][1000 genomes]
rs7922043	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9299840	0.82[CHB][hapmap];0.88[JPT][hapmap]
rs9651377	0.91[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9731878	0.87[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7086946	YME1L1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27283200-27388400	Weak transcription	Psoas Muscle	Psoas
2	chr10:27291600-27388000	Weak transcription	Small Intestine	intestine
3	chr10:27313200-27388200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr10:27313200-27388600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr10:27313400-27388400	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr10:27314600-27388800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr10:27323400-27388600	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr10:27326800-27388200	Weak transcription	Brain Substantia Nigra	brain
9	chr10:27328000-27388200	Weak transcription	K562	blood
10	chr10:27330200-27381400	Weak transcription	HSMMtube	muscle
11	chr10:27333000-27384600	Weak transcription	Fetal Heart	heart
12	chr10:27350200-27387800	Weak transcription	HMEC	breast
13	chr10:27358600-27388400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr10:27360400-27378800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr10:27360400-27383800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr10:27360400-27384800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr10:27360600-27384600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr10:27361600-27388200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr10:27362200-27388400	Weak transcription	Colonic Mucosa	Colon
20	chr10:27362400-27388000	Weak transcription	Right Ventricle	heart
21	chr10:27362400-27388200	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr10:27362400-27388400	Weak transcription	Pancreas	Pancrea
23	chr10:27362600-27377600	Weak transcription	Rectal Smooth Muscle	rectum
24	chr10:27362600-27377800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr10:27362600-27388400	Weak transcription	Esophagus	oesophagus
26	chr10:27362600-27388400	Weak transcription	Spleen	Spleen
27	chr10:27362600-27388800	Weak transcription	Gastric	stomach
28	chr10:27362800-27382200	Weak transcription	Brain Angular Gyrus	brain
29	chr10:27362800-27388600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
30	chr10:27363000-27378000	Weak transcription	Fetal Brain Male	brain
31	chr10:27365000-27388000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr10:27366400-27377600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
33	chr10:27366600-27381600	Weak transcription	HSMM	muscle
34	chr10:27366600-27382200	Weak transcription	NHEK	skin
35	chr10:27366600-27388000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
36	chr10:27366600-27388600	Weak transcription	Fetal Kidney	kidney
37	chr10:27366800-27380800	Weak transcription	Primary T helper cells PMA-I stimulated	--
38	chr10:27367200-27382600	Weak transcription	Primary monocytes fromperipheralblood	blood
39	chr10:27367400-27388200	Weak transcription	Primary B cells from peripheral blood	blood
40	chr10:27367600-27388400	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr10:27367800-27387800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
42	chr10:27368400-27377600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr10:27368400-27380400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr10:27369800-27388200	Weak transcription	NHDF-Ad	bronchial
45	chr10:27370000-27377800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr10:27370000-27378400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr10:27370000-27388600	Weak transcription	Aorta	Aorta
48	chr10:27371000-27383600	Strong transcription	HUES6 Cell Line	embryonic stem cell
49	chr10:27371400-27377600	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr10:27371600-27377400	Weak transcription	Cortex derived primary cultured neurospheres	brain

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