Variant report

Variant	rs1861090
Chromosome Location	chr12:9929679-9929680
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:9924505..9927030-chr12:9928111..9932157,3	K562	blood:
2	chr12:9928036..9930338-chr12:9937118..9939542,2	K562	blood:
3	chr12:9925530..9928012-chr12:9928111..9929858,2	K562	blood:

Extended variants
information (count: 70 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs1029990	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1029991	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1029992	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1029993	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1029994	0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10772127	0.96[ASN][1000 genomes]
rs10772128	0.96[ASN][1000 genomes]
rs10772132	0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10772137	0.82[ASN][1000 genomes]
rs10772138	0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs10844737	0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10844749	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10844750	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10844769	0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs10844790	0.80[ASN][1000 genomes]
rs11052969	0.95[ASN][1000 genomes]
rs11052970	0.95[ASN][1000 genomes]
rs11052971	0.95[ASN][1000 genomes]
rs11052978	0.95[ASN][1000 genomes]
rs11053043	0.83[ASN][1000 genomes]
rs12422685	0.94[ASN][1000 genomes]
rs12422688	0.94[ASN][1000 genomes]
rs12422955	0.94[ASN][1000 genomes]
rs12422989	0.95[ASN][1000 genomes]
rs12425365	0.94[ASN][1000 genomes]
rs12427030	0.95[ASN][1000 genomes]
rs12427278	0.94[ASN][1000 genomes]
rs12427301	0.95[ASN][1000 genomes]
rs12582052	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12816871	0.95[ASN][1000 genomes]
rs12817268	0.94[ASN][1000 genomes]
rs12819552	0.94[ASN][1000 genomes]
rs12824297	0.95[ASN][1000 genomes]
rs12824308	0.94[ASN][1000 genomes]
rs1540355	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1540356	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2071647	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2098299	0.83[ASN][1000 genomes]
rs2110449	0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs2110450	0.82[CHD][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs2110451	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2110452	0.84[ASN][1000 genomes]
rs2160086	1.00[CHB][hapmap];0.91[JPT][hapmap];0.91[ASN][1000 genomes]
rs2160087	0.80[ASN][1000 genomes]
rs3136559	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.81[GIH][hapmap];0.91[JPT][hapmap];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3136563	1.00[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs3176773	1.00[CHB][hapmap];0.88[CHD][hapmap];0.86[JPT][hapmap];0.95[ASN][1000 genomes]
rs3176775	1.00[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs3176776	1.00[CHB][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap];0.94[ASN][1000 genomes]
rs3176787	1.00[CHB][hapmap];0.95[CHD][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs3176789	0.95[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34779650	0.92[ASN][1000 genomes]
rs35143542	0.95[ASN][1000 genomes]
rs35559880	0.95[ASN][1000 genomes]
rs4385980	0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4519175	0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4519176	0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs724666	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs724667	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs724668	0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7295897	0.95[ASN][1000 genomes]
rs7309767	0.95[ASN][1000 genomes]
rs7309875	0.95[ASN][1000 genomes]
rs7488011	0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7953260	0.95[ASN][1000 genomes]
rs7958251	0.96[ASN][1000 genomes]
rs7958591	0.80[ASN][1000 genomes]
rs7976639	0.84[ASN][1000 genomes]
rs7978977	0.82[ASN][1000 genomes]
rs9971740	0.95[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1861090	USP5	cis	parietal	SCAN
rs1861090	ATN1	cis	parietal	SCAN

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:9918600-9932000	Weak transcription	Primary B cells from peripheral blood	blood
2	chr12:9924400-9930200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr12:9924600-9930600	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr12:9924800-9930200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
5	chr12:9925200-9930000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
6	chr12:9925200-9930000	Enhancers	Primary T killer memory cells from peripheral blood	blood
7	chr12:9926200-9930400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
8	chr12:9926800-9930200	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr12:9927000-9930200	Enhancers	Primary T cells from cord blood	blood
10	chr12:9927200-9930400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
11	chr12:9927400-9930000	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr12:9927600-9934000	Weak transcription	Thymus	Thymus
13	chr12:9927600-9938800	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr12:9927800-9935400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr12:9928000-9929800	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr12:9928000-9935600	Enhancers	Primary T helper cells PMA-I stimulated	--
17	chr12:9928200-9930000	Enhancers	HUES64 Cell Line	embryonic stem cell
18	chr12:9928400-9945400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr12:9928800-9929800	Enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr12:9929000-9929800	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr12:9929000-9930000	Enhancers	Fetal Thymus	thymus
22	chr12:9929000-9930200	Enhancers	HUES48 Cell Line	embryonic stem cell
23	chr12:9929200-9929800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr12:9929200-9931400	Weak transcription	Monocytes-CD14+_RO01746	blood
25	chr12:9929600-9930000	Enhancers	Primary T cells fromperipheralblood	blood
26	chr12:9929600-9930000	Enhancers	Primary T regulatory cells fromperipheralblood	blood

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