Variant report

Variant	rs7866487
Chromosome Location	chr9:97505318-97505319
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:97494025..97495913-chr9:97503226..97505755,2	MCF-7	breast:

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10122127	0.92[JPT][hapmap]
rs1028843	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10512234	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10512236	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs10732405	1.00[JPT][hapmap]
rs10993325	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10993329	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993337	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10993340	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10993341	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10993349	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10993351	1.00[JPT][hapmap]
rs10993360	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10993362	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10993363	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10993364	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12336061	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12336308	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12336437	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12337706	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12337992	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12338982	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12341764	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12341814	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12343530	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12344157	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12344256	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12345098	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12345321	0.96[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12345763	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12345783	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12346548	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12347744	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12348060	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12348206	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12351111	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12352600	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12352856	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16911670	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16911713	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2025793	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2304884	0.92[JPT][hapmap]
rs242259	0.92[JPT][hapmap]
rs34335636	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs356135	1.00[JPT][hapmap]
rs376902	1.00[JPT][hapmap]
rs3808890	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3858088	0.92[JPT][hapmap]
rs41281168	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4744380	1.00[JPT][hapmap]
rs60048957	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60514919	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61446634	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6479566	0.81[AFR][1000 genomes]
rs7031172	1.00[JPT][hapmap]
rs7045387	0.91[JPT][hapmap]
rs7869666	0.91[JPT][hapmap]
rs925813	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9987493	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9987549	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9987803	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv893596	chr9:97321172-97598966	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
2	nsv1041922	chr9:97444976-97536753	Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	esv2764145	chr9:97495261-97505608	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97489600-97506000	Weak transcription	Lung	lung
2	chr9:97489600-97524800	Weak transcription	Esophagus	oesophagus
3	chr9:97489800-97505800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr9:97489800-97505800	Weak transcription	Right Ventricle	heart
5	chr9:97489800-97508000	Weak transcription	Primary B cells from peripheral blood	blood
6	chr9:97489800-97511000	Weak transcription	Fetal Muscle Trunk	muscle
7	chr9:97489800-97511400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr9:97489800-97511600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr9:97489800-97521600	Weak transcription	Fetal Thymus	thymus
10	chr9:97489800-97522000	Weak transcription	Thymus	Thymus
11	chr9:97489800-97522400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr9:97490000-97505400	Weak transcription	HMEC	breast
13	chr9:97490000-97505600	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr9:97490000-97510600	Weak transcription	Primary T cells from cord blood	blood
15	chr9:97490000-97510800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr9:97490000-97510800	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr9:97490000-97510800	Weak transcription	Fetal Brain Female	brain
18	chr9:97490000-97510800	Weak transcription	NHDF-Ad	bronchial
19	chr9:97490000-97511600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr9:97490000-97511600	Weak transcription	Osteobl	bone
21	chr9:97490000-97512200	Weak transcription	Colon Smooth Muscle	Colon
22	chr9:97490000-97519400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr9:97490000-97521600	Weak transcription	Rectal Smooth Muscle	rectum
24	chr9:97490200-97508800	Weak transcription	Fetal Muscle Leg	muscle
25	chr9:97490200-97510800	Weak transcription	GM12878-XiMat	blood
26	chr9:97490200-97511000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr9:97490200-97511000	Weak transcription	NHEK	skin
28	chr9:97490200-97512200	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr9:97490200-97519200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr9:97490400-97508800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr9:97490400-97508800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr9:97490400-97511400	Weak transcription	Hela-S3	cervix
33	chr9:97490400-97511600	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr9:97490600-97510800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr9:97491000-97505400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr9:97491000-97511000	Weak transcription	Dnd41	blood
37	chr9:97491400-97507800	Weak transcription	Brain Germinal Matrix	brain
38	chr9:97496400-97511000	Weak transcription	HUES64 Cell Line	embryonic stem cell
39	chr9:97496800-97511600	Weak transcription	Left Ventricle	heart
40	chr9:97497000-97510000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr9:97497000-97510800	Weak transcription	Primary hematopoietic stem cells	blood
42	chr9:97497000-97511400	Weak transcription	Adipose Nuclei	Adipose
43	chr9:97497000-97511600	Weak transcription	Psoas Muscle	Psoas
44	chr9:97497000-97522000	Weak transcription	Placenta	Placenta
45	chr9:97497200-97522200	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr9:97497600-97511400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr9:97499200-97505800	Weak transcription	Gastric	stomach
48	chr9:97499400-97508800	Weak transcription	Cortex derived primary cultured neurospheres	brain
49	chr9:97499400-97511600	Weak transcription	Sigmoid Colon	Sigmoid Colon
50	chr9:97499600-97508000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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