Variant report

Variant	rs2168013
Chromosome Location	chr15:60650048-60650049
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:60648215..60650612-chr15:60665366..60667137,2	MCF-7	breast:
2	chr15:60649414..60651159-chr15:60662340..60664090,2	MCF-7	breast:
3	chr15:60645435..60647896-chr15:60649479..60651008,2	MCF-7	breast:
4	chr15:60647640..60653087-chr15:60688759..60691610,5	K562	blood:

Variant related genes	Relation type
ENSG00000182718	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs1033027	0.89[EUR][1000 genomes]
rs10851676	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10851678	0.81[ASN][1000 genomes]
rs10851679	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11071519	0.91[CHB][hapmap];0.84[CHD][hapmap];0.97[GIH][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs11071521	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs11631793	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11631850	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11634259	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11854079	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.93[MEX][hapmap];0.85[MKK][hapmap];0.89[TSI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12439973	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];0.86[YRI][hapmap];0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12440492	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12441980	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12708462	0.84[EUR][1000 genomes]
rs12898604	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.94[TSI][hapmap];0.92[YRI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12899562	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.89[EUR][1000 genomes]
rs12904910	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.93[MEX][hapmap];0.85[MKK][hapmap];0.89[TSI][hapmap];0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1551349	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1567408	0.89[EUR][1000 genomes]
rs1967370	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2014953	0.88[EUR][1000 genomes]
rs2063322	0.88[EUR][1000 genomes]
rs2063324	0.88[EUR][1000 genomes]
rs2063325	0.88[EUR][1000 genomes]
rs2085037	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2123828	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2123833	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2136553	0.89[EUR][1000 genomes]
rs2136555	0.88[EUR][1000 genomes]
rs2175187	0.89[EUR][1000 genomes]
rs2202920	0.88[EUR][1000 genomes]
rs2414667	0.89[EUR][1000 genomes]
rs2414668	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2414670	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3743269	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.93[MEX][hapmap];0.85[MKK][hapmap];0.89[TSI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3743270	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3825957	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.86[MEX][hapmap];1.00[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4485290	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4530072	0.83[ASN][1000 genomes]
rs4775257	0.88[EUR][1000 genomes]
rs7165592	0.89[EUR][1000 genomes]
rs7167571	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7170178	0.91[CHB][hapmap];0.84[CHD][hapmap];0.92[GIH][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs7170421	0.84[ASN][1000 genomes]
rs7172784	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7178033	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7179548	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7180174	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8027359	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8029375	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8033896	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8037326	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8039867	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9920432	0.82[EUR][1000 genomes]
rs9920513	0.81[ASN][1000 genomes]
rs9920684	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9920883	0.86[EUR][1000 genomes]
rs9972449	0.95[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.88[MKK][hapmap];0.89[TSI][hapmap];0.86[YRI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2168013	C2CD4A	cis	cerebellum	SCAN

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:60633000-60651400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:60634600-60651200	Genic enhancers	A549	lung
3	chr15:60636000-60651800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr15:60636600-60657800	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr15:60637000-60654800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr15:60637200-60652800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr15:60637200-60653600	Strong transcription	Placenta	Placenta
8	chr15:60637200-60654000	Strong transcription	Rectal Mucosa Donor 29	rectum
9	chr15:60637200-60656800	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr15:60637200-60656800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr15:60637400-60658000	Strong transcription	HUES64 Cell Line	embryonic stem cell
12	chr15:60637600-60650200	Strong transcription	Sigmoid Colon	Sigmoid Colon
13	chr15:60637600-60651400	Strong transcription	Duodenum Smooth Muscle	Duodenum
14	chr15:60637600-60658000	Strong transcription	Primary monocytes fromperipheralblood	blood
15	chr15:60637800-60652400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr15:60638000-60654200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr15:60638000-60654600	Strong transcription	NHEK	skin
18	chr15:60638000-60655000	Strong transcription	Primary T cells fromperipheralblood	blood
19	chr15:60638200-60650800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr15:60638200-60655000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr15:60638400-60651800	Strong transcription	Primary T helper cells fromperipheralblood	blood
22	chr15:60638400-60656800	Strong transcription	Primary B cells from peripheral blood	blood
23	chr15:60639600-60656800	Strong transcription	HepG2	liver
24	chr15:60640000-60657800	Strong transcription	Fetal Intestine Large	intestine
25	chr15:60640200-60650200	Strong transcription	Lung	lung
26	chr15:60640600-60656200	Weak transcription	Fetal Thymus	thymus
27	chr15:60640600-60656800	Strong transcription	HUES48 Cell Line	embryonic stem cell
28	chr15:60640600-60657200	Strong transcription	HUES6 Cell Line	embryonic stem cell
29	chr15:60640600-60657800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
30	chr15:60641600-60658000	Genic enhancers	Muscle Satellite Cultured Cells	--
31	chr15:60642400-60657600	Strong transcription	K562	blood
32	chr15:60643000-60651200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr15:60643200-60654200	Strong transcription	Duodenum Mucosa	Duodenum
34	chr15:60643400-60651400	Strong transcription	Adipose Nuclei	Adipose
35	chr15:60643600-60655800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr15:60646000-60650600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr15:60646000-60651200	Strong transcription	HSMMtube	muscle
38	chr15:60646200-60650800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr15:60646200-60651000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr15:60646200-60651200	Strong transcription	Osteobl	bone
41	chr15:60646200-60651400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
42	chr15:60646200-60651800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
43	chr15:60646200-60656200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr15:60646400-60662200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr15:60646600-60650600	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr15:60647200-60651000	Weak transcription	Thymus	Thymus
47	chr15:60647400-60651200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr15:60647400-60651200	Strong transcription	Hela-S3	cervix
49	chr15:60647400-60654400	Strong transcription	HMEC	breast
50	chr15:60647400-60669000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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