Variant report

Variant	rs10516529
Chromosome Location	chr4:106799316-106799317
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:106780950..106782455-chr4:106798571..106801151,2	MCF-7	breast:
2	chr4:106798138..106799969-chr4:106818933..106821674,2	MCF-7	breast:
3	chr4:106780531..106782678-chr4:106796997..106799530,3	K562	blood:

Variant related genes	Relation type
ENSG00000168743	Chromatin interaction

Extended variants
information (count: 147 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:144)

rs_ID	r²[population]
rs10050159	0.87[CEU][hapmap];0.91[TSI][hapmap];0.88[EUR][1000 genomes]
rs10050333	0.87[CEU][hapmap];0.88[EUR][1000 genomes]
rs10516525	0.87[CEU][hapmap];0.85[EUR][1000 genomes]
rs10516526	0.87[CEU][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes]
rs10516527	0.87[CEU][hapmap];0.90[EUR][1000 genomes]
rs10516528	0.87[CEU][hapmap];0.90[EUR][1000 genomes]
rs11097901	0.90[EUR][1000 genomes]
rs11722225	0.85[CEU][hapmap];0.94[EUR][1000 genomes]
rs11723225	0.85[CEU][hapmap];0.90[EUR][1000 genomes]
rs11723240	0.90[EUR][1000 genomes]
rs11723639	0.90[EUR][1000 genomes]
rs11724839	0.87[CEU][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs11724884	0.85[EUR][1000 genomes]
rs11726094	0.94[EUR][1000 genomes]
rs11726124	0.87[CEU][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs11726569	0.87[CEU][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs11726674	0.87[CEU][hapmap];0.95[TSI][hapmap];0.90[EUR][1000 genomes]
rs11727189	0.81[EUR][1000 genomes]
rs11727348	0.87[CEU][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes]
rs11727500	0.90[EUR][1000 genomes]
rs11727735	0.87[CEU][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs11727745	0.87[CEU][hapmap];0.90[TSI][hapmap];0.90[EUR][1000 genomes]
rs11728044	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs11728716	0.87[CEU][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs11728918	0.90[EUR][1000 genomes]
rs11729003	0.81[EUR][1000 genomes]
rs11730354	0.94[EUR][1000 genomes]
rs11730365	0.94[EUR][1000 genomes]
rs11730660	1.00[EUR][1000 genomes]
rs11731386	0.81[EUR][1000 genomes]
rs11731417	0.87[CEU][hapmap];0.95[TSI][hapmap];0.90[EUR][1000 genomes]
rs11731714	0.82[EUR][1000 genomes]
rs11731938	0.90[EUR][1000 genomes]
rs11732298	0.87[CEU][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes]
rs11732629	0.94[EUR][1000 genomes]
rs11732650	0.87[CEU][hapmap];0.94[EUR][1000 genomes]
rs11733093	0.90[EUR][1000 genomes]
rs11733124	0.85[EUR][1000 genomes]
rs11733150	0.94[EUR][1000 genomes]
rs11733223	0.87[CEU][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs11733225	0.85[CEU][hapmap];0.85[EUR][1000 genomes]
rs11733287	0.87[CEU][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes]
rs11733654	0.90[EUR][1000 genomes]
rs11734568	0.85[EUR][1000 genomes]
rs11734571	0.85[EUR][1000 genomes]
rs11735527	0.85[EUR][1000 genomes]
rs11735851	0.87[CEU][hapmap];0.85[EUR][1000 genomes]
rs11736834	0.85[EUR][1000 genomes]
rs11736859	0.87[CEU][hapmap];0.85[EUR][1000 genomes]
rs11737335	0.81[EUR][1000 genomes]
rs11737741	0.81[EUR][1000 genomes]
rs12374256	0.87[CEU][hapmap]
rs17036105	0.81[EUR][1000 genomes]
rs17036120	0.81[EUR][1000 genomes]
rs17036123	0.87[CEU][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs17036125	0.81[EUR][1000 genomes]
rs17036129	0.87[CEU][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs17036139	0.87[CEU][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs17036142	0.87[CEU][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs17036156	0.87[CEU][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes]
rs17036177	0.85[EUR][1000 genomes]
rs17036189	0.85[EUR][1000 genomes]
rs17036225	0.87[CEU][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes]
rs17036230	0.87[CEU][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes]
rs17036258	0.90[EUR][1000 genomes]
rs17036292	0.90[EUR][1000 genomes]
rs17036308	0.94[EUR][1000 genomes]
rs17036310	0.94[EUR][1000 genomes]
rs17036327	0.94[EUR][1000 genomes]
rs17036341	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17331332	1.00[CEU][hapmap];0.95[TSI][hapmap];1.00[EUR][1000 genomes]
rs28488297	0.88[EUR][1000 genomes]
rs34072732	0.81[EUR][1000 genomes]
rs35370743	0.81[EUR][1000 genomes]
rs35808787	0.85[EUR][1000 genomes]
rs4373160	0.81[EUR][1000 genomes]
rs58775257	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59462153	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs67277942	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72671805	0.81[EUR][1000 genomes]
rs72671808	0.81[EUR][1000 genomes]
rs72671809	0.81[EUR][1000 genomes]
rs72671810	0.81[EUR][1000 genomes]
rs72671811	0.81[EUR][1000 genomes]
rs72671815	0.81[EUR][1000 genomes]
rs72671820	0.81[EUR][1000 genomes]
rs72671824	0.81[EUR][1000 genomes]
rs72671826	0.81[EUR][1000 genomes]
rs72671828	0.81[EUR][1000 genomes]
rs72671835	0.81[EUR][1000 genomes]
rs72671836	0.81[EUR][1000 genomes]
rs72671837	0.81[EUR][1000 genomes]
rs72671840	0.81[EUR][1000 genomes]
rs72671844	0.81[EUR][1000 genomes]
rs72671849	0.81[EUR][1000 genomes]
rs72671852	0.81[EUR][1000 genomes]
rs72671854	0.81[EUR][1000 genomes]
rs72671855	0.81[EUR][1000 genomes]
rs72671856	0.81[EUR][1000 genomes]
rs72671858	0.81[EUR][1000 genomes]
rs72671861	0.81[EUR][1000 genomes]
rs72671862	0.81[EUR][1000 genomes]
rs72671863	0.81[EUR][1000 genomes]
rs72671866	0.85[EUR][1000 genomes]
rs72671869	0.85[EUR][1000 genomes]
rs72671870	0.85[EUR][1000 genomes]
rs72671871	0.85[EUR][1000 genomes]
rs72671873	0.85[EUR][1000 genomes]
rs72671874	0.85[EUR][1000 genomes]
rs72671878	0.85[EUR][1000 genomes]
rs72671879	0.85[EUR][1000 genomes]
rs72671880	0.85[EUR][1000 genomes]
rs72671881	0.85[EUR][1000 genomes]
rs72671885	0.85[EUR][1000 genomes]
rs72671886	0.85[EUR][1000 genomes]
rs72671889	0.85[EUR][1000 genomes]
rs72671892	0.85[EUR][1000 genomes]
rs72671895	0.85[EUR][1000 genomes]
rs72671896	0.85[EUR][1000 genomes]
rs72673803	0.85[EUR][1000 genomes]
rs72673805	0.85[EUR][1000 genomes]
rs72673811	0.85[EUR][1000 genomes]
rs72673812	0.85[EUR][1000 genomes]
rs72673813	0.85[EUR][1000 genomes]
rs72673817	0.85[EUR][1000 genomes]
rs72673822	0.90[EUR][1000 genomes]
rs72673823	0.90[EUR][1000 genomes]
rs72673824	0.90[EUR][1000 genomes]
rs72673828	0.90[EUR][1000 genomes]
rs72673831	0.90[EUR][1000 genomes]
rs72673832	0.90[EUR][1000 genomes]
rs72673834	0.90[EUR][1000 genomes]
rs72673853	0.94[EUR][1000 genomes]
rs72673855	0.94[EUR][1000 genomes]
rs72673858	0.94[EUR][1000 genomes]
rs72673860	0.94[EUR][1000 genomes]
rs72673865	0.94[EUR][1000 genomes]
rs72673870	0.94[EUR][1000 genomes]
rs72673872	0.94[EUR][1000 genomes]
rs72673873	0.94[EUR][1000 genomes]
rs72673888	1.00[EUR][1000 genomes]
rs72673889	1.00[EUR][1000 genomes]
rs72673891	1.00[EUR][1000 genomes]
rs7676975	0.87[CEU][hapmap];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830028	chr4:106769299-106801806	Weak transcription Enhancers ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	esv1797065	chr4:106769322-106799532	Enhancers Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv1014993	chr4:106796019-106980727	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10516529	INTS12	cis	lymphoblastoid	seeQTL

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106792200-106815800	Weak transcription	Aorta	Aorta
2	chr4:106797200-106799400	Weak transcription	Fetal Heart	heart
3	chr4:106797200-106799400	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr4:106797200-106799800	Weak transcription	Left Ventricle	heart
5	chr4:106797200-106799800	Weak transcription	Psoas Muscle	Psoas
6	chr4:106797200-106799800	Weak transcription	Skeletal Muscle Male	skeletal muscle

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