Variant report

Variant	rs9841758
Chromosome Location	chr3:99537180-99537181
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:99536894..99538407-chr3:99549555..99551120,2	K562	blood:
2	chr3:99534888..99538188-chr3:99978029..99981295,5	K562	blood:
3	chr11:62609023..62609533-chr3:99536736..99537348,2	Hela-S3	cervix:
4	chr3:99535897..99537944-chr3:99594142..99596963,2	K562	blood:
5	chr3:99534048..99538188-chr3:99977608..99981959,7	K562	blood:
6	chr3:99534190..99537845-chr3:99978822..99982000,3	MCF-7	breast:
7	chr3:99536512..99537205-chr5:6632834..6633650,3	Hela-S3	cervix:
8	chr3:99535720..99537944-chr3:99593016..99595642,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000168386	Chromatin interaction
ENSG00000133316	Chromatin interaction
ENSG00000145545	Chromatin interaction
ENSG00000036054	Chromatin interaction
ENSG00000037474	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs12330310	1.00[AFR][1000 genomes]
rs13315221	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs13320602	1.00[YRI][hapmap]
rs13323384	1.00[AFR][1000 genomes]
rs13327351	0.83[AFR][1000 genomes]
rs13353487	1.00[AFR][1000 genomes]
rs16841800	1.00[AFR][1000 genomes]
rs16841824	1.00[AFR][1000 genomes]
rs16841828	0.83[AFR][1000 genomes]
rs16841836	1.00[AFR][1000 genomes]
rs16846956	0.83[AFR][1000 genomes]
rs28368726	1.00[AFR][1000 genomes]
rs28411225	0.83[AFR][1000 genomes]
rs28463921	1.00[AFR][1000 genomes]
rs28508384	1.00[AFR][1000 genomes]
rs28728176	0.83[AFR][1000 genomes]
rs28816814	1.00[AFR][1000 genomes]
rs9809706	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9810553	1.00[AFR][1000 genomes]
rs9816232	1.00[AFR][1000 genomes]
rs9820799	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9824229	1.00[AFR][1000 genomes]
rs9825382	1.00[AFR][1000 genomes]
rs9825938	1.00[AFR][1000 genomes]
rs9828782	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9830038	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs9831309	1.00[YRI][hapmap]
rs9831706	0.83[AFR][1000 genomes]
rs9833005	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs9835048	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9837028	1.00[AFR][1000 genomes]
rs9837204	1.00[AFR][1000 genomes]
rs9837555	1.00[AFR][1000 genomes]
rs9841053	1.00[AFR][1000 genomes]
rs9843919	1.00[AFR][1000 genomes]
rs9844578	1.00[AFR][1000 genomes]
rs9844595	1.00[AFR][1000 genomes]
rs9849336	1.00[AFR][1000 genomes]
rs9849373	1.00[AFR][1000 genomes]
rs9851406	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9851985	0.83[AFR][1000 genomes]
rs9852857	1.00[AFR][1000 genomes]
rs9860986	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9862370	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9868303	1.00[AFR][1000 genomes]
rs9870153	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs9871500	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9875301	1.00[AFR][1000 genomes]
rs9883235	1.00[YRI][hapmap];1.00[AFR][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	nsv817478	chr3:99474086-99955548	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99535600-99537200	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr3:99535600-99537200	Active TSS	iPS-15b Cell Line	embryonic stem cell
3	chr3:99535600-99537200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr3:99535600-99537200	Active TSS	Brain Cingulate Gyrus	brain
5	chr3:99535600-99537200	Active TSS	Pancreatic Islets	Pancreatic Islet
6	chr3:99535600-99537400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr3:99535600-99537400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
8	chr3:99535600-99537400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr3:99535600-99537400	Active TSS	Thymus	Thymus
10	chr3:99535600-99537400	Active TSS	A549	lung
11	chr3:99535600-99537600	Active TSS	ES-I3 Cell Line	embryonic stem cell
12	chr3:99535600-99537600	Active TSS	H1 Cell Line	embryonic stem cell
13	chr3:99535600-99537600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr3:99535600-99537800	Active TSS	HUES48 Cell Line	embryonic stem cell
15	chr3:99535600-99537800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr3:99535600-99538000	Active TSS	iPS-20b Cell Line	embryonic stem cell
17	chr3:99535600-99538000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr3:99535600-99538000	Active TSS	Psoas Muscle	Psoas
19	chr3:99535800-99537200	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr3:99535800-99537200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr3:99535800-99537200	Active TSS	Brain Angular Gyrus	brain
22	chr3:99535800-99537200	Active TSS	Esophagus	oesophagus
23	chr3:99535800-99537200	Active TSS	Stomach Mucosa	stomach
24	chr3:99535800-99537400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
25	chr3:99535800-99537400	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr3:99535800-99537400	Active TSS	H9 Cell Line	embryonic stem cell
27	chr3:99535800-99537400	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr3:99535800-99537400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr3:99535800-99537400	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr3:99535800-99537400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr3:99535800-99537400	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
32	chr3:99535800-99537400	Active TSS	Fetal Brain Male	brain
33	chr3:99535800-99537400	Active TSS	Fetal Muscle Trunk	muscle
34	chr3:99535800-99537400	Active TSS	Left Ventricle	heart
35	chr3:99535800-99537400	Active TSS	Ovary	ovary
36	chr3:99535800-99537400	Active TSS	Placenta Amnion	Placenta Amnion
37	chr3:99535800-99537600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr3:99535800-99537600	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr3:99535800-99537600	Active TSS	Fetal Muscle Leg	muscle
40	chr3:99535800-99537600	Active TSS	Fetal Stomach	stomach
41	chr3:99535800-99537600	Active TSS	Pancreas	Pancrea
42	chr3:99535800-99537600	Active TSS	Right Atrium	heart
43	chr3:99535800-99537600	Active TSS	Right Ventricle	heart
44	chr3:99535800-99538000	Active TSS	K562	blood
45	chr3:99536000-99537200	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr3:99536000-99537200	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr3:99536000-99537200	Active TSS	iPS-18 Cell Line	embryonic stem cell
48	chr3:99536000-99537200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr3:99536000-99537200	Active TSS	Brain Germinal Matrix	brain
50	chr3:99536000-99537200	Active TSS	Brain Hippocampus Middle	brain

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