Variant report

Variant	rs917761
Chromosome Location	chr7:117859053-117859054
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:117858675..117860839-chr7:117870370..117872666,2	K562	blood:
2	chr7:117858469..117860839-chr7:117870370..117873011,3	K562	blood:
3	chr7:117856350..117860138-chr7:117860834..117863487,3	K562	blood:

Extended variants
information (count: 125 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:123)

rs_ID	r²[population]
rs10085904	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];0.98[TSI][hapmap];0.91[YRI][hapmap];0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10226152	0.91[EUR][1000 genomes]
rs10227326	0.84[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs10229589	0.91[EUR][1000 genomes]
rs10241875	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10252627	0.83[EUR][1000 genomes]
rs10267938	0.89[EUR][1000 genomes]
rs10487390	0.91[EUR][1000 genomes]
rs1054032	0.91[CEU][hapmap];0.85[CHB][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.91[TSI][hapmap];0.91[EUR][1000 genomes]
rs1061731	0.91[CEU][hapmap];0.84[CHB][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.91[TSI][hapmap];0.91[EUR][1000 genomes]
rs10953864	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1117254	0.87[EUR][1000 genomes]
rs11486992	0.85[ASW][hapmap];0.91[CEU][hapmap];0.89[GIH][hapmap];0.91[TSI][hapmap];0.91[EUR][1000 genomes]
rs11487110	0.80[CEU][hapmap]
rs11543742	0.91[EUR][1000 genomes]
rs11761947	0.82[EUR][1000 genomes]
rs11768889	0.82[EUR][1000 genomes]
rs11770353	0.88[EUR][1000 genomes]
rs11979012	0.91[CEU][hapmap];0.81[CHB][hapmap];0.89[GIH][hapmap];0.93[TSI][hapmap];0.90[EUR][1000 genomes]
rs12537795	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[YRI][hapmap];0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12666439	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12667103	0.86[EUR][1000 genomes]
rs12670769	0.80[EUR][1000 genomes]
rs13224397	0.82[EUR][1000 genomes]
rs13224733	0.93[EUR][1000 genomes]
rs17584234	0.81[EUR][1000 genomes]
rs17584359	0.82[EUR][1000 genomes]
rs194577	0.82[EUR][1000 genomes]
rs194578	0.82[EUR][1000 genomes]
rs194579	0.82[EUR][1000 genomes]
rs2058416	0.88[EUR][1000 genomes]
rs2058417	0.93[EUR][1000 genomes]
rs2058418	0.83[CEU][hapmap];0.81[MKK][hapmap];0.80[TSI][hapmap];0.81[EUR][1000 genomes]
rs20598	0.82[EUR][1000 genomes]
rs2191920	0.88[EUR][1000 genomes]
rs2402322	0.84[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs2896242	0.86[CEU][hapmap];0.84[CHB][hapmap];0.85[JPT][hapmap];0.91[EUR][1000 genomes]
rs34029977	0.82[EUR][1000 genomes]
rs34847140	0.82[EUR][1000 genomes]
rs35382009	0.82[EUR][1000 genomes]
rs3802012	0.89[EUR][1000 genomes]
rs4141028	0.89[EUR][1000 genomes]
rs41900	0.89[EUR][1000 genomes]
rs41901	0.89[EUR][1000 genomes]
rs41902	0.89[EUR][1000 genomes]
rs41905	0.89[EUR][1000 genomes]
rs41906	0.88[EUR][1000 genomes]
rs41909	0.89[EUR][1000 genomes]
rs41910	0.86[EUR][1000 genomes]
rs41911	0.86[EUR][1000 genomes]
rs41915	0.85[EUR][1000 genomes]
rs41916	0.85[EUR][1000 genomes]
rs41926	0.85[EUR][1000 genomes]
rs41933	0.84[EUR][1000 genomes]
rs41934	0.85[EUR][1000 genomes]
rs41935	0.85[EUR][1000 genomes]
rs41938	0.85[EUR][1000 genomes]
rs41939	0.85[EUR][1000 genomes]
rs41945	0.85[EUR][1000 genomes]
rs41946	0.82[EUR][1000 genomes]
rs41947	0.82[EUR][1000 genomes]
rs41948	0.82[EUR][1000 genomes]
rs41949	0.82[EUR][1000 genomes]
rs41950	0.82[EUR][1000 genomes]
rs41951	0.82[EUR][1000 genomes]
rs41952	0.82[EUR][1000 genomes]
rs41953	0.82[EUR][1000 genomes]
rs41954	0.82[EUR][1000 genomes]
rs41955	0.82[EUR][1000 genomes]
rs41956	0.82[EUR][1000 genomes]
rs41957	0.82[EUR][1000 genomes]
rs41958	0.82[EUR][1000 genomes]
rs41959	0.81[EUR][1000 genomes]
rs41961	0.82[EUR][1000 genomes]
rs41963	0.82[EUR][1000 genomes]
rs41964	0.82[EUR][1000 genomes]
rs41966	0.81[EUR][1000 genomes]
rs41967	0.82[EUR][1000 genomes]
rs41968	0.82[EUR][1000 genomes]
rs41969	0.82[EUR][1000 genomes]
rs41970	0.82[EUR][1000 genomes]
rs41977	0.82[EUR][1000 genomes]
rs41978	0.80[EUR][1000 genomes]
rs41979	0.82[EUR][1000 genomes]
rs41980	0.82[EUR][1000 genomes]
rs41982	0.82[EUR][1000 genomes]
rs41983	0.82[EUR][1000 genomes]
rs41984	0.82[EUR][1000 genomes]
rs41985	0.82[EUR][1000 genomes]
rs41986	0.82[EUR][1000 genomes]
rs41987	0.82[EUR][1000 genomes]
rs41988	0.82[EUR][1000 genomes]
rs41990	0.82[EUR][1000 genomes]
rs41991	0.82[EUR][1000 genomes]
rs41993	0.82[EUR][1000 genomes]
rs41994	0.82[EUR][1000 genomes]
rs41995	0.82[EUR][1000 genomes]
rs41996	0.82[EUR][1000 genomes]
rs41997	0.82[EUR][1000 genomes]
rs42234	0.82[EUR][1000 genomes]
rs42376	0.82[EUR][1000 genomes]
rs4727865	0.82[EUR][1000 genomes]
rs5002233	0.84[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs68189275	0.82[EUR][1000 genomes]
rs6942513	0.91[CEU][hapmap];0.90[CHB][hapmap]
rs6944524	0.91[EUR][1000 genomes]
rs6946855	0.91[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap];0.93[EUR][1000 genomes]
rs6948096	0.91[EUR][1000 genomes]
rs6956486	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6964911	0.82[CEU][hapmap];0.93[EUR][1000 genomes]
rs6965144	0.91[EUR][1000 genomes]
rs769435	0.81[MKK][hapmap]
rs7779933	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7786233	0.80[CEU][hapmap]
rs7796145	0.91[EUR][1000 genomes]
rs7796148	0.91[EUR][1000 genomes]
rs7797855	0.91[EUR][1000 genomes]
rs7799229	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9655829	0.85[ASW][hapmap];0.91[CEU][hapmap];0.85[CHB][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.81[LWK][hapmap];0.91[TSI][hapmap];0.84[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs9656260	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs979652	0.91[CEU][hapmap];0.85[CHB][hapmap];0.89[GIH][hapmap];0.91[TSI][hapmap];0.91[EUR][1000 genomes]
rs989899	0.88[EUR][1000 genomes]
rs992035	0.87[CEU][hapmap];0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869971	chr7:117420583-118274149	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	nsv889088	chr7:117744660-117913648	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs917761	LSM8	cis	multi-tissue	Pritchard
rs917761	ANKRD7	cis	parietal	SCAN
rs917761	ANKRD7	cis	cerebellum	SCAN
rs917761	NAA38	cis	lymphoblastoid	seeQTL

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:117855200-117859400	Weak transcription	Fetal Kidney	kidney
2	chr7:117857400-117859400	Enhancers	K562	blood
3	chr7:117857600-117859200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr7:117859000-117859600	Enhancers	Ovary	ovary

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