Variant report

Variant	rs1064560
Chromosome Location	chr9:97057814-97057815
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97057093..97059981-chr9:97063795..97065484,2	K562	blood:
2	chr9:97021632..97023442-chr9:97057310..97060089,2	MCF-7	breast:
3	chr9:97021120..97022711-chr9:97055563..97058040,2	K562	blood:
4	chr9:97011802..97014770-chr9:97055516..97058379,2	K562	blood:

Variant related genes	Relation type
ENSG00000175787	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10821333	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10821334	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10821336	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10821343	1.00[YRI][hapmap]
rs10993134	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10993141	0.93[MKK][hapmap];1.00[YRI][hapmap]
rs10993142	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10993146	1.00[YRI][hapmap];0.83[AMR][1000 genomes]
rs10993195	1.00[YRI][hapmap]
rs12335976	1.00[YRI][hapmap]
rs12337094	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12337563	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12338855	0.83[AMR][1000 genomes]
rs12341738	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12347725	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12350212	1.00[YRI][hapmap]
rs12350679	1.00[AFR][1000 genomes]
rs17351644	1.00[YRI][hapmap]
rs3118749	1.00[JPT][hapmap]
rs34172416	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs34750754	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs35148223	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs35177967	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs35230494	1.00[AFR][1000 genomes]
rs36083433	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs55993768	1.00[AFR][1000 genomes]
rs66868150	0.83[AMR][1000 genomes]
rs67171407	1.00[AFR][1000 genomes]
rs7020359	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7029667	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7034579	1.00[AFR][1000 genomes]
rs7849604	0.93[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7863750	1.00[YRI][hapmap]
rs7867183	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7867289	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893592	chr9:96973995-97295269	Strong transcription ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1046906	chr9:96999227-97239809	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	esv2761545	chr9:97025298-97356950	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv1041195	chr9:97054795-97402378	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97032400-97064600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr9:97036800-97062600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:97039200-97062600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr9:97039400-97067600	Weak transcription	Brain Cingulate Gyrus	brain
5	chr9:97040000-97064600	Weak transcription	Brain Germinal Matrix	brain
6	chr9:97041200-97065400	Weak transcription	Small Intestine	intestine
7	chr9:97042600-97061400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr9:97042600-97068400	Weak transcription	Fetal Brain Female	brain
9	chr9:97042800-97064000	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr9:97042800-97064400	Weak transcription	Hela-S3	cervix
11	chr9:97043000-97061400	Weak transcription	Fetal Thymus	thymus
12	chr9:97043200-97060000	Weak transcription	Fetal Lung	lung
13	chr9:97043200-97062800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr9:97043200-97062800	Weak transcription	Brain Angular Gyrus	brain
15	chr9:97043200-97063000	Weak transcription	HMEC	breast
16	chr9:97043200-97064000	Weak transcription	Colonic Mucosa	Colon
17	chr9:97043200-97064400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr9:97043800-97059600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
19	chr9:97043800-97066400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr9:97044000-97059800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
21	chr9:97044000-97062600	Weak transcription	A549	lung
22	chr9:97046000-97063600	Strong transcription	Monocytes-CD14+_RO01746	blood
23	chr9:97047000-97059200	Strong transcription	Primary T helper cells fromperipheralblood	blood
24	chr9:97048200-97059000	Strong transcription	Primary B cells from cord blood	blood
25	chr9:97048400-97060600	Strong transcription	Primary T cells from cord blood	blood
26	chr9:97048800-97058000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr9:97049600-97061000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr9:97050600-97062600	Weak transcription	Right Atrium	heart
29	chr9:97050800-97064600	Weak transcription	Right Ventricle	heart
30	chr9:97051000-97061200	Weak transcription	Rectal Smooth Muscle	rectum
31	chr9:97051600-97061400	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr9:97052600-97064200	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr9:97053400-97060200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr9:97053600-97058400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
35	chr9:97053600-97058400	Strong transcription	Duodenum Mucosa	Duodenum
36	chr9:97053800-97063400	Strong transcription	Primary monocytes fromperipheralblood	blood
37	chr9:97054000-97058400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr9:97054000-97059800	Weak transcription	HUES64 Cell Line	embryonic stem cell
39	chr9:97054000-97060400	Weak transcription	K562	blood
40	chr9:97054200-97058000	Strong transcription	Duodenum Smooth Muscle	Duodenum
41	chr9:97054200-97058400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr9:97054400-97058800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
43	chr9:97054400-97059200	Strong transcription	Primary B cells from peripheral blood	blood
44	chr9:97054600-97058000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr9:97054600-97058200	Strong transcription	Primary T helper naive cells from peripheral blood	blood
46	chr9:97054600-97058400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
47	chr9:97054600-97058600	Strong transcription	Primary neutrophils fromperipheralblood	blood
48	chr9:97055000-97058000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr9:97055200-97058200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
50	chr9:97055200-97061000	Weak transcription	Stomach Mucosa	stomach

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