Variant report

Variant	rs2417641
Chromosome Location	chr9:108162809-108162810
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:108005117..108007295-chr9:108162219..108164397,2	MCF-7	breast:
2	chr9:108153124..108158591-chr9:108160157..108165830,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000070214	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10991625	0.86[EUR][1000 genomes]
rs10991630	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs10991632	0.86[EUR][1000 genomes]
rs10991633	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs10991634	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs10991636	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs10991638	0.93[EUR][1000 genomes]
rs10991640	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs10991641	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs10991643	0.93[EUR][1000 genomes]
rs10991644	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs10991645	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs11096	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs12377753	0.86[EUR][1000 genomes]
rs12377755	0.86[EUR][1000 genomes]
rs12379026	0.86[EUR][1000 genomes]
rs12379533	0.90[EUR][1000 genomes]
rs12380580	1.00[CEU][hapmap]
rs1360087	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs1410838	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs17246769	0.89[EUR][1000 genomes]
rs1969981	1.00[EUR][1000 genomes]
rs2149591	0.93[EUR][1000 genomes]
rs2771032	1.00[EUR][1000 genomes]
rs2771034	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs2771043	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs2812313	0.93[EUR][1000 genomes]
rs2812317	1.00[CEU][hapmap];0.90[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs724069	0.80[YRI][hapmap]
rs73514068	0.85[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	nsv1045108	chr9:107509553-108188550	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv1037750	chr9:108027692-108251733	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS 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 miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108096200-108164200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr9:108125000-108166800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr9:108146800-108177600	Weak transcription	Left Ventricle	heart
4	chr9:108148400-108168000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr9:108148800-108165600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr9:108152600-108166000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr9:108153600-108163800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr9:108153600-108163800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr9:108155000-108164200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr9:108155400-108172600	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr9:108155600-108164200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr9:108155600-108165600	Weak transcription	Brain Anterior Caudate	brain
13	chr9:108155800-108163800	Weak transcription	Pancreatic Islets	Pancreatic Islet
14	chr9:108156800-108165800	Weak transcription	Fetal Brain Male	brain
15	chr9:108157400-108163200	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr9:108159400-108163200	Weak transcription	Brain Cingulate Gyrus	brain
17	chr9:108159400-108164200	Weak transcription	Brain Hippocampus Middle	brain
18	chr9:108159600-108163800	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr9:108159800-108164000	Weak transcription	Psoas Muscle	Psoas
20	chr9:108159800-108164200	Weak transcription	Brain Substantia Nigra	brain
21	chr9:108159800-108166000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr9:108160000-108165800	Weak transcription	Brain Angular Gyrus	brain
23	chr9:108160400-108164000	Weak transcription	Ovary	ovary
24	chr9:108161400-108163800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr9:108161800-108163200	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr9:108161800-108163200	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr9:108161800-108163200	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr9:108161800-108163200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
29	chr9:108161800-108163200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr9:108161800-108164000	Weak transcription	Fetal Heart	heart
31	chr9:108162000-108163200	Weak transcription	HUES64 Cell Line	embryonic stem cell
32	chr9:108162000-108163200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr9:108162000-108163200	Weak transcription	Fetal Lung	lung
34	chr9:108162000-108164000	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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