Variant report

Variant	rs17036090
Chromosome Location	chr4:106593574-106593575
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:106588298..106590664-chr4:106592645..106594401,2	MCF-7	breast:

Extended variants
information (count: 158 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:157)

rs_ID	r²[population]
rs10050159	1.00[CEU][hapmap]
rs10050333	1.00[CEU][hapmap]
rs10516525	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10516526	1.00[CEU][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10516527	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10516528	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11097901	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11722225	1.00[CEU][hapmap];0.84[AMR][1000 genomes]
rs11723225	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11723240	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11723639	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11724839	1.00[CEU][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11724884	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11725523	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs11726094	0.80[AMR][1000 genomes]
rs11726124	1.00[CEU][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.84[AMR][1000 genomes]
rs11726569	1.00[CEU][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11726674	1.00[CEU][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11727189	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11727348	1.00[CEU][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11727500	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11727735	1.00[CEU][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11727745	1.00[CEU][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11728044	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11728716	1.00[CEU][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.80[AMR][1000 genomes]
rs11728918	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11729003	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11730354	0.84[AMR][1000 genomes]
rs11730365	0.84[AMR][1000 genomes]
rs11731386	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11731417	1.00[CEU][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11731714	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11731938	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11732298	1.00[CEU][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11732629	0.80[AMR][1000 genomes]
rs11732650	1.00[CEU][hapmap];0.84[AMR][1000 genomes]
rs11733093	0.80[AMR][1000 genomes]
rs11733124	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11733150	0.84[AMR][1000 genomes]
rs11733223	1.00[CEU][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.84[AMR][1000 genomes]
rs11733225	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11733287	1.00[CEU][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11733654	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11734568	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11734571	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11735213	1.00[CEU][hapmap];0.80[AMR][1000 genomes]
rs11735527	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11735851	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11736834	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11736859	1.00[CEU][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11737335	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11737741	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12374256	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1374531	1.00[CEU][hapmap];0.80[AMR][1000 genomes]
rs17035917	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs17035960	0.88[CEU][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17035971	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17036027	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17036052	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17036066	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17036076	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17036105	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17036120	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17036123	1.00[CEU][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17036125	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17036129	1.00[CEU][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17036139	1.00[CEU][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17036142	1.00[CEU][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17036156	1.00[CEU][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17036177	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17036189	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17036225	1.00[CEU][hapmap];0.82[MEX][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17036230	1.00[CEU][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17036258	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17036292	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17036308	0.84[AMR][1000 genomes]
rs17036310	0.84[AMR][1000 genomes]
rs17036327	0.80[AMR][1000 genomes]
rs17036337	1.00[MEX][hapmap]
rs34072732	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35370743	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35808787	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4373160	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72669974	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs72669978	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs72669980	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs72669981	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs72669982	0.80[AMR][1000 genomes]
rs72669992	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72669993	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72669995	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72669997	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72669998	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72670002	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72671805	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671808	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671809	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671810	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671811	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671815	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671820	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671824	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671826	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671828	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671835	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671836	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671837	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671840	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671844	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671849	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671852	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671853	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72671854	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671855	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671856	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671858	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671861	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671862	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671863	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72671866	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72671869	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72671870	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72671871	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72671873	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72671874	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72671878	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72671879	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72671880	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72671881	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72671885	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72671886	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72671889	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72671892	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72671895	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72671896	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72673803	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72673805	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72673811	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72673812	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72673813	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72673817	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72673822	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72673823	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72673824	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72673828	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72673831	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72673832	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72673834	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72673853	0.84[AMR][1000 genomes]
rs72673855	0.84[AMR][1000 genomes]
rs72673858	0.84[AMR][1000 genomes]
rs72673860	0.80[AMR][1000 genomes]
rs72673865	0.84[AMR][1000 genomes]
rs72673870	0.84[AMR][1000 genomes]
rs72673872	0.84[AMR][1000 genomes]
rs72673873	0.84[AMR][1000 genomes]
rs7676975	1.00[CEU][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv879699	chr4:106212562-106698892	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs17036090	INTS12	cis	lymphoblastoid	seeQTL
rs17036090	LOC57117	cis	multi-tissue	Pritchard
rs17036090	INTS12	cis	brain	seeQTL
rs17036090	FABP4	trans	brain	seeQTL

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106559400-106602800	Weak transcription	Duodenum Mucosa	Duodenum
2	chr4:106569800-106600400	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr4:106578600-106607000	Weak transcription	Small Intestine	intestine
4	chr4:106580400-106603400	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr4:106580400-106613200	Weak transcription	Fetal Intestine Small	intestine
6	chr4:106580600-106593800	Weak transcription	Gastric	stomach
7	chr4:106587800-106629000	Weak transcription	Lung	lung
8	chr4:106588800-106600200	Weak transcription	Pancreas	Pancrea
9	chr4:106589200-106598800	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr4:106592600-106598600	Weak transcription	Fetal Intestine Large	intestine
11	chr4:106593000-106603800	Weak transcription	Aorta	Aorta

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