Variant report

Variant	rs787299
Chromosome Location	chr9:115542369-115542370
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:115542323..115543892-chr9:115545474..115547035,2	K562	blood:
2	chr9:115512086..115513984-chr9:115541004..115543980,2	MCF-7	breast:
3	chr9:115537609..115539652-chr9:115540859..115543192,2	K562	blood:
4	chr9:115534861..115537925-chr9:115540163..115544235,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000226609	Chromatin interaction
ENSG00000148158	Chromatin interaction

Extended variants
information (count: 164 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:129)

rs_ID	r²[population]
rs10115576	0.85[CEU][hapmap];0.88[GIH][hapmap];0.87[TSI][hapmap]
rs10115711	1.00[ASN][1000 genomes]
rs10124260	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10124939	0.88[GIH][hapmap]
rs10124979	1.00[ASN][1000 genomes]
rs10733594	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10733598	0.85[CEU][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10733599	0.85[CEU][hapmap];1.00[ASN][1000 genomes]
rs10739370	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10739373	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10739374	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10739376	0.85[CEU][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10739378	0.85[CEU][hapmap]
rs10759584	0.96[EUR][1000 genomes]
rs10759590	0.85[CEU][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10759603	0.85[CEU][hapmap];1.00[ASN][1000 genomes]
rs10759604	1.00[ASN][1000 genomes]
rs1158331	1.00[ASN][1000 genomes]
rs11791531	1.00[ASN][1000 genomes]
rs1324931	0.85[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];1.00[ASN][1000 genomes]
rs1361719	0.93[EUR][1000 genomes]
rs1361720	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs1418409	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1418410	0.85[CEU][hapmap];0.88[TSI][hapmap]
rs1475293	0.85[CEU][hapmap];0.88[GIH][hapmap];0.87[TSI][hapmap]
rs1539338	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1570754	1.00[ASN][1000 genomes]
rs1693411	1.00[ASN][1000 genomes]
rs1711739	0.85[CEU][hapmap]
rs1711744	0.88[TSI][hapmap]
rs1711745	0.82[CEU][hapmap]
rs1711746	0.82[CEU][hapmap];1.00[ASN][1000 genomes]
rs1711747	0.86[GIH][hapmap];0.94[TSI][hapmap];1.00[ASN][1000 genomes]
rs1832890	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1891402	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1891403	1.00[CEU][hapmap];0.88[GIH][hapmap];0.94[TSI][hapmap];0.88[EUR][1000 genomes]
rs2025544	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[GIH][hapmap];1.00[ASN][1000 genomes]
rs2051018	1.00[ASN][1000 genomes]
rs2147643	1.00[ASN][1000 genomes]
rs2147646	1.00[ASN][1000 genomes]
rs2153837	0.85[CEU][hapmap];0.81[GIH][hapmap];0.94[TSI][hapmap];1.00[ASN][1000 genomes]
rs2182048	1.00[ASN][1000 genomes]
rs2185769	0.85[CEU][hapmap];1.00[ASN][1000 genomes]
rs2645985	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2645991	0.91[EUR][1000 genomes]
rs2645993	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs2645994	0.85[CEU][hapmap];0.87[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];1.00[ASN][1000 genomes]
rs2796025	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796028	1.00[CEU][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796031	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796035	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2935476	0.81[EUR][1000 genomes]
rs4246892	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4304397	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4360356	1.00[ASN][1000 genomes]
rs4549852	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4604521	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4978507	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4978510	1.00[ASN][1000 genomes]
rs4978511	0.88[GIH][hapmap]
rs4979148	0.96[EUR][1000 genomes]
rs4979150	0.96[EUR][1000 genomes]
rs4979153	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs4979154	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4979155	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4979156	0.86[EUR][1000 genomes]
rs4979157	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4979165	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4979170	0.85[CEU][hapmap]
rs4979183	1.00[ASN][1000 genomes]
rs4979184	1.00[ASN][1000 genomes]
rs4979186	1.00[ASN][1000 genomes]
rs6477959	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs700122	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7026450	1.00[ASN][1000 genomes]
rs7030795	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7038684	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7040954	1.00[ASN][1000 genomes]
rs7041965	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7047914	1.00[ASN][1000 genomes]
rs72768430	0.84[AMR][1000 genomes]
rs7859175	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7859381	0.83[EUR][1000 genomes]
rs7862183	0.88[EUR][1000 genomes]
rs7868830	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs7869100	1.00[ASN][1000 genomes]
rs786961	1.00[ASW][hapmap];0.85[CEU][hapmap];0.87[GIH][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];1.00[ASN][1000 genomes]
rs786965	1.00[ASN][1000 genomes]
rs786966	0.87[GIH][hapmap];0.88[TSI][hapmap];1.00[ASN][1000 genomes]
rs786967	1.00[ASN][1000 genomes]
rs786968	0.87[GIH][hapmap];0.94[TSI][hapmap];1.00[ASN][1000 genomes]
rs786969	1.00[ASN][1000 genomes]
rs786972	1.00[ASN][1000 genomes]
rs786973	1.00[ASN][1000 genomes]
rs786977	0.87[GIH][hapmap];0.94[TSI][hapmap];1.00[ASN][1000 genomes]
rs786978	0.88[TSI][hapmap]
rs7872308	0.93[EUR][1000 genomes]
rs7872628	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs787269	0.81[EUR][1000 genomes]
rs787270	0.83[EUR][1000 genomes]
rs787271	1.00[CEU][hapmap];0.88[GIH][hapmap];0.94[TSI][hapmap];0.96[EUR][1000 genomes]
rs787272	0.83[EUR][1000 genomes]
rs787274	0.88[GIH][hapmap];0.81[TSI][hapmap];0.84[EUR][1000 genomes]
rs787275	0.84[EUR][1000 genomes]
rs787276	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs787278	0.85[CEU][hapmap];1.00[ASN][1000 genomes]
rs787279	0.96[EUR][1000 genomes]
rs787280	1.00[CEU][hapmap];0.88[GIH][hapmap];0.94[TSI][hapmap];0.96[EUR][1000 genomes]
rs787281	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs787284	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs787285	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs787286	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs787287	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs787291	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs787294	1.00[CEU][hapmap]
rs787295	1.00[CEU][hapmap];0.88[GIH][hapmap];0.94[TSI][hapmap];0.96[EUR][1000 genomes]
rs787296	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs787297	1.00[CEU][hapmap];0.88[GIH][hapmap];0.94[TSI][hapmap];0.96[EUR][1000 genomes]
rs787298	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs787301	1.00[CEU][hapmap];0.87[GIH][hapmap];0.94[TSI][hapmap];0.96[EUR][1000 genomes]
rs787302	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs787303	0.90[AFR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7873289	0.85[CEU][hapmap];1.00[ASN][1000 genomes]
rs813101	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs885387	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs912662	1.00[ASN][1000 genomes]
rs9409123	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs947609	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs980345	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:35 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758198	chr9:115240454-116002951	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	esv2759710	chr9:115240454-116002951	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv515899	chr9:115359049-115593870	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	esv34346	chr9:115360505-115581453	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv1038999	chr9:115367078-115590950	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
6	esv2757350	chr9:115371397-115594108	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
7	nsv471317	chr9:115375153-115558246	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
8	esv2761275	chr9:115376461-115590962	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
9	nsv1035169	chr9:115378282-115573581	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
10	nsv1049451	chr9:115378282-115585109	Strong transcription Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
11	nsv1047374	chr9:115378282-115590950	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
12	nsv1038306	chr9:115379305-115595695	Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
13	nsv540194	chr9:115379305-115595695	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
14	nsv1051909	chr9:115379505-115588377	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
15	nsv540195	chr9:115379505-115588377	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
16	nsv915763	chr9:115379600-115588349	Strong transcription Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
17	esv3693040	chr9:115381164-115578065	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
18	nsv515121	chr9:115383227-115585827	Genic enhancers Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
19	nsv1044168	chr9:115383253-115585109	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
20	nsv1048327	chr9:115383253-115589646	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
21	nsv1044381	chr9:115383253-115590950	Flanking Active TSS Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
22	nsv442163	chr9:115383255-115590578	Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
23	esv35051	chr9:115383332-115573581	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
24	esv34763	chr9:115383332-115581453	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
25	nsv430090	chr9:115383445-115594445	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
26	nsv1041424	chr9:115389428-115590950	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
27	nsv1050186	chr9:115390759-115550453	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
28	nsv1047625	chr9:115390759-115587347	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
29	nsv540196	chr9:115390759-115587347	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
30	nsv615198	chr9:115397206-115589251	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
31	nsv893733	chr9:115397206-115712068	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
32	nsv1051808	chr9:115397891-115590950	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
33	esv34739	chr9:115409445-115581453	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
34	nsv1048733	chr9:115523926-115549547	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	n/a
35	nsv1045953	chr9:115523926-115553052	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs787299	TSCOT	cis	multi-tissue	Pritchard

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:115517400-115542800	Weak transcription	HSMMtube	muscle
2	chr9:115525400-115546400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr9:115526800-115543200	Weak transcription	NHDF-Ad	bronchial
4	chr9:115527000-115548600	Weak transcription	Small Intestine	intestine
5	chr9:115527400-115546000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr9:115527400-115552600	Weak transcription	Esophagus	oesophagus
7	chr9:115528800-115551400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr9:115530600-115545800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr9:115530800-115546800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr9:115532000-115545800	Weak transcription	Left Ventricle	heart
11	chr9:115532000-115546800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr9:115532200-115544800	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr9:115534400-115546800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr9:115534400-115549600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr9:115534600-115543200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr9:115534600-115545600	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr9:115534800-115546800	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr9:115535000-115548600	Weak transcription	Primary T cells from cord blood	blood
19	chr9:115535000-115549000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr9:115535400-115543200	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr9:115535600-115545800	Weak transcription	Stomach Smooth Muscle	stomach
22	chr9:115535600-115546600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr9:115535600-115546800	Weak transcription	Fetal Lung	lung
24	chr9:115535600-115549200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
25	chr9:115535600-115550600	Weak transcription	Rectal Smooth Muscle	rectum
26	chr9:115535800-115542800	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr9:115535800-115545400	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr9:115535800-115548400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr9:115536000-115549400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
30	chr9:115536400-115546400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr9:115536400-115549000	Weak transcription	Primary T helper cells fromperipheralblood	blood
32	chr9:115536800-115542400	Weak transcription	Ovary	ovary
33	chr9:115537000-115546400	Weak transcription	Stomach Mucosa	stomach
34	chr9:115537000-115548600	Weak transcription	Monocytes-CD14+_RO01746	blood
35	chr9:115537000-115551600	Weak transcription	Adipose Nuclei	Adipose
36	chr9:115539000-115542600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr9:115539000-115551400	Weak transcription	Aorta	Aorta
38	chr9:115539000-115572800	Weak transcription	Spleen	Spleen
39	chr9:115539200-115545000	Weak transcription	Pancreas	Pancrea
40	chr9:115539200-115545400	Weak transcription	Fetal Heart	heart
41	chr9:115539200-115546000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr9:115539400-115544400	Weak transcription	Fetal Intestine Large	intestine
43	chr9:115539400-115544600	Weak transcription	Fetal Intestine Small	intestine
44	chr9:115539400-115545800	Weak transcription	Duodenum Mucosa	Duodenum
45	chr9:115539400-115546200	Weak transcription	Gastric	stomach
46	chr9:115540200-115542600	Enhancers	Lung	lung
47	chr9:115540400-115546800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr9:115540600-115542600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr9:115540800-115543800	Enhancers	Brain Cingulate Gyrus	brain
50	chr9:115540800-115543800	Enhancers	Brain Hippocampus Middle	brain

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