Variant report

Variant	rs835649
Chromosome Location	chr3:136671890-136671891
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:136670286..136672672-chr3:136673441..136676045,3	K562	blood:
2	chr3:136670696..136673372-chr3:136678994..136680976,2	K562	blood:
3	chr3:136670796..136672304-chr3:136673206..136674953,2	MCF-7	breast:
4	chr3:136578093..136582643-chr3:136670368..136673498,4	K562	blood:

Variant related genes	Relation type
ENSG00000158092	Chromatin interaction
ENSG00000239213	Chromatin interaction

Extended variants
information (count: 179 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:179)

rs_ID	r²[population]
rs10470440	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.86[MKK][hapmap];0.81[ASN][1000 genomes]
rs1052618	0.91[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.86[MKK][hapmap];0.84[ASN][1000 genomes]
rs10935198	0.81[ASN][1000 genomes]
rs10935210	1.00[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs11921170	0.83[ASN][1000 genomes]
rs11924477	0.81[ASN][1000 genomes]
rs12054219	0.85[CEU][hapmap]
rs12054408	0.84[CEU][hapmap]
rs12330283	1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs12486911	0.92[CEU][hapmap]
rs12487901	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs12488365	0.87[ASN][1000 genomes]
rs12491278	0.83[ASN][1000 genomes]
rs12494558	0.81[CEU][hapmap]
rs12630955	0.87[ASN][1000 genomes]
rs12633003	0.81[ASN][1000 genomes]
rs12637949	1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs12695653	0.81[ASN][1000 genomes]
rs13314932	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs13315318	0.89[ASN][1000 genomes]
rs1344790	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs1347209	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.88[MKK][hapmap];0.87[ASN][1000 genomes]
rs1406540	1.00[CHB][hapmap];0.94[CHD][hapmap];0.82[JPT][hapmap];0.88[MKK][hapmap];0.81[ASN][1000 genomes]
rs1406541	0.88[CHB][hapmap];0.81[ASN][1000 genomes]
rs1433318	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.89[MKK][hapmap];0.92[ASN][1000 genomes]
rs1433319	1.00[CHB][hapmap];0.88[CHD][hapmap];0.91[JPT][hapmap];0.88[MKK][hapmap];0.92[ASN][1000 genomes]
rs1533445	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap]
rs1569228	0.91[CHB][hapmap];0.88[CHD][hapmap];0.82[JPT][hapmap];0.88[MKK][hapmap];0.81[ASN][1000 genomes]
rs1569229	0.81[ASN][1000 genomes]
rs1654925	0.81[CEU][hapmap]
rs1654926	0.81[CEU][hapmap]
rs16844325	0.81[CEU][hapmap]
rs168635	0.81[CEU][hapmap]
rs1805300	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.89[MKK][hapmap];0.84[ASN][1000 genomes]
rs1819095	0.87[ASN][1000 genomes]
rs1865149	1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs1914048	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.92[MKK][hapmap];0.81[ASN][1000 genomes]
rs1965108	0.89[ASN][1000 genomes]
rs1965109	1.00[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs1971788	0.89[ASN][1000 genomes]
rs2031029	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.88[MKK][hapmap];0.87[ASN][1000 genomes]
rs2031030	0.84[ASN][1000 genomes]
rs2060303	0.84[ASN][1000 genomes]
rs2117009	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.88[MKK][hapmap];0.87[ASN][1000 genomes]
rs2117010	0.87[ASN][1000 genomes]
rs2138540	0.87[ASN][1000 genomes]
rs2138541	0.83[ASN][1000 genomes]
rs2271684	1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs2343662	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs2343663	0.87[ASN][1000 genomes]
rs35339486	0.87[ASN][1000 genomes]
rs35760633	0.84[ASN][1000 genomes]
rs361237	0.81[CEU][hapmap]
rs361239	0.81[CEU][hapmap]
rs361245	0.81[CEU][hapmap]
rs361246	0.81[CEU][hapmap]
rs361248	0.81[CEU][hapmap]
rs3772387	0.89[ASN][1000 genomes]
rs3772388	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.88[MKK][hapmap];0.89[ASN][1000 genomes]
rs3845925	1.00[CHB][hapmap];0.91[JPT][hapmap];0.92[ASN][1000 genomes]
rs3856623	1.00[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs3915455	0.88[ASN][1000 genomes]
rs3963921	1.00[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs4533585	1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs4678272	0.87[ASN][1000 genomes]
rs4678273	0.87[ASN][1000 genomes]
rs4678274	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.89[MKK][hapmap];0.87[ASN][1000 genomes]
rs4678276	0.92[ASN][1000 genomes]
rs4678441	0.96[CEU][hapmap];1.00[CHB][hapmap];0.91[GIH][hapmap];0.95[MEX][hapmap];0.91[TSI][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4678442	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4678443	1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs4678444	0.81[ASN][1000 genomes]
rs4678448	0.90[CHB][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs4678450	0.87[ASN][1000 genomes]
rs4678451	0.87[ASN][1000 genomes]
rs4678452	0.87[ASN][1000 genomes]
rs6439663	0.81[CHB][hapmap];0.88[CHD][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs6439664	0.90[CHB][hapmap];0.88[CHD][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs6439667	0.81[ASN][1000 genomes]
rs6439671	0.84[ASN][1000 genomes]
rs6439672	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.89[MKK][hapmap];0.84[ASN][1000 genomes]
rs6439673	0.87[ASN][1000 genomes]
rs6439675	0.87[ASN][1000 genomes]
rs6761993	0.87[ASN][1000 genomes]
rs6766755	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.88[MKK][hapmap];0.83[ASN][1000 genomes]
rs6771717	1.00[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs6773117	1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs6775389	1.00[CHB][hapmap];0.91[JPT][hapmap];0.92[ASN][1000 genomes]
rs6777816	0.84[ASN][1000 genomes]
rs6782716	0.85[ASN][1000 genomes]
rs6783508	1.00[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs6783999	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.88[MKK][hapmap];0.89[ASN][1000 genomes]
rs6784005	0.87[ASN][1000 genomes]
rs6786302	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.88[MKK][hapmap];0.89[ASN][1000 genomes]
rs6786648	1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs6797509	1.00[CHB][hapmap];0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs6800032	0.87[ASN][1000 genomes]
rs6800690	0.87[ASN][1000 genomes]
rs6803618	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.88[MKK][hapmap];0.87[ASN][1000 genomes]
rs7431100	0.89[ASN][1000 genomes]
rs7434143	0.87[ASN][1000 genomes]
rs747842	0.81[CEU][hapmap]
rs75976	0.81[CEU][hapmap]
rs75977	0.81[CEU][hapmap]
rs7611847	1.00[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs7614422	0.81[ASN][1000 genomes]
rs7617932	0.84[ASN][1000 genomes]
rs7627443	0.84[ASN][1000 genomes]
rs7629882	1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs7630571	0.81[ASN][1000 genomes]
rs7631017	0.84[ASN][1000 genomes]
rs7636956	0.83[ASN][1000 genomes]
rs7645773	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.88[MKK][hapmap];0.87[ASN][1000 genomes]
rs7647451	0.87[ASN][1000 genomes]
rs7648198	0.81[AMR][1000 genomes]
rs7648817	1.00[CHB][hapmap];0.94[CHD][hapmap];0.90[JPT][hapmap];0.88[MKK][hapmap];0.89[ASN][1000 genomes]
rs7651085	0.87[ASN][1000 genomes]
rs7651644	0.93[ASN][1000 genomes]
rs835632	0.85[CEU][hapmap]
rs835634	0.85[CEU][hapmap]
rs835636	0.88[ASW][hapmap];0.85[CEU][hapmap];0.89[GIH][hapmap];0.83[LWK][hapmap];0.96[MEX][hapmap];0.97[MKK][hapmap];0.83[TSI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs835637	0.94[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.93[TSI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs856662	0.95[ASN][1000 genomes]
rs9289523	1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs938524	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs938525	1.00[CHB][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs9682106	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.92[MKK][hapmap];0.80[ASN][1000 genomes]
rs9811169	0.87[ASN][1000 genomes]
rs9815771	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.88[MKK][hapmap];0.87[ASN][1000 genomes]
rs9817453	0.84[ASN][1000 genomes]
rs9817967	0.87[ASN][1000 genomes]
rs9818397	0.91[CHB][hapmap];0.94[CHD][hapmap];0.82[JPT][hapmap];0.88[MKK][hapmap];0.81[ASN][1000 genomes]
rs9818792	1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs9819572	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.88[MKK][hapmap];0.81[ASN][1000 genomes]
rs9819743	1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs9821557	0.81[ASN][1000 genomes]
rs9823565	0.81[ASN][1000 genomes]
rs9827648	0.88[CHD][hapmap];0.91[JPT][hapmap];0.88[MKK][hapmap];0.84[ASN][1000 genomes]
rs9828009	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.86[MKK][hapmap];0.87[ASN][1000 genomes]
rs9832045	0.81[ASN][1000 genomes]
rs9833952	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.89[MKK][hapmap];0.92[ASN][1000 genomes]
rs9834250	0.81[ASN][1000 genomes]
rs9834861	0.87[ASN][1000 genomes]
rs9835096	0.81[ASN][1000 genomes]
rs9836807	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.88[MKK][hapmap];0.84[ASN][1000 genomes]
rs9837990	1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs9838022	0.87[ASN][1000 genomes]
rs9841985	0.81[ASN][1000 genomes]
rs9842145	0.84[ASN][1000 genomes]
rs9842400	0.83[ASN][1000 genomes]
rs9842436	0.87[ASN][1000 genomes]
rs9842577	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.88[MKK][hapmap];0.81[ASN][1000 genomes]
rs9843352	0.81[ASN][1000 genomes]
rs9843733	0.87[ASN][1000 genomes]
rs9846334	0.87[ASN][1000 genomes]
rs9846691	1.00[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs9846754	0.87[ASN][1000 genomes]
rs9847548	0.81[ASN][1000 genomes]
rs9848867	1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs9849767	0.88[CHB][hapmap];0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs9851726	0.89[ASN][1000 genomes]
rs9853417	0.87[ASN][1000 genomes]
rs9855314	1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs9856828	0.87[ASN][1000 genomes]
rs9859665	1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs9859810	1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs9860774	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.88[MKK][hapmap];0.81[ASN][1000 genomes]
rs9863551	0.83[ASN][1000 genomes]
rs9864926	0.81[ASN][1000 genomes]
rs9864941	0.84[ASN][1000 genomes]
rs9865545	1.00[CHB][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs9870377	0.88[ASN][1000 genomes]
rs9874887	1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs9878117	0.87[ASN][1000 genomes]
rs9878367	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.88[MKK][hapmap];0.87[ASN][1000 genomes]
rs9878464	0.90[CHB][hapmap];0.88[CHD][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs9881139	0.91[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs9883131	0.87[ASN][1000 genomes]
rs9883979	0.89[ASN][1000 genomes]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs835649	C4orf31	trans	cerebellum	SCAN
rs835649	SPSB4	cis	cerebellum	SCAN
rs835649	PCCB	cis	cerebellum	SCAN
rs835649	PCCB	cis	parietal	SCAN
rs835649	TMEM22	cis	cerebellum	SCAN
rs835649	MSL2	cis	parietal	SCAN

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136646600-136673800	Weak transcription	Pancreas	Pancrea
2	chr3:136648600-136673800	Weak transcription	Fetal Intestine Small	intestine
3	chr3:136656400-136681400	Weak transcription	Fetal Muscle Leg	muscle
4	chr3:136657400-136673200	Weak transcription	NH-A	brain
5	chr3:136658600-136679400	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr3:136661800-136672600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr3:136661800-136673800	Weak transcription	Right Atrium	heart
8	chr3:136662000-136672800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr3:136662000-136673800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr3:136662000-136676600	Weak transcription	Psoas Muscle	Psoas
11	chr3:136662400-136675200	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr3:136662600-136673600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr3:136662600-136673600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr3:136662600-136673800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr3:136662600-136676400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr3:136662800-136673800	Weak transcription	Colon Smooth Muscle	Colon
17	chr3:136662800-136674000	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr3:136662800-136674000	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr3:136662800-136678800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
20	chr3:136665000-136673200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr3:136665000-136673200	Weak transcription	Esophagus	oesophagus
22	chr3:136665000-136674000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr3:136665200-136673000	Weak transcription	Gastric	stomach
24	chr3:136665200-136673200	Weak transcription	Lung	lung
25	chr3:136665200-136673200	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr3:136665200-136673200	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr3:136665200-136673200	Weak transcription	Thymus	Thymus
28	chr3:136665200-136673600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr3:136665200-136673800	Weak transcription	Stomach Smooth Muscle	stomach
30	chr3:136665200-136673800	Weak transcription	Osteobl	bone
31	chr3:136665200-136674000	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr3:136665200-136676000	Weak transcription	Fetal Lung	lung
33	chr3:136665200-136676800	Weak transcription	Aorta	Aorta
34	chr3:136665200-136680200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr3:136665400-136672600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr3:136665400-136673200	Weak transcription	Adipose Nuclei	Adipose
37	chr3:136665400-136673400	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr3:136665400-136673600	Weak transcription	Placenta	Placenta
39	chr3:136665400-136673800	Weak transcription	Duodenum Mucosa	Duodenum
40	chr3:136665400-136673800	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr3:136665400-136674200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr3:136665400-136679000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr3:136665400-136680200	Weak transcription	Primary T cells fromperipheralblood	blood
44	chr3:136665400-136680200	Weak transcription	Fetal Muscle Trunk	muscle
45	chr3:136665600-136673000	Weak transcription	Liver	Liver
46	chr3:136665600-136673600	Weak transcription	Fetal Intestine Large	intestine
47	chr3:136665600-136673800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr3:136665600-136673800	Weak transcription	Stomach Mucosa	stomach
49	chr3:136665600-136674000	Weak transcription	HUES64 Cell Line	embryonic stem cell
50	chr3:136665600-136674000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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