Variant report

Variant	rs1362820
Chromosome Location	chr9:96930485-96930486
allele	A/G
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:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:96885338..96887288-chr9:96929216..96930886,2	MCF-7	breast:
2	chr9:96790341..96794271-chr9:96926817..96931236,5	K562	blood:
3	chr9:96773280..96775592-chr9:96928831..96930974,2	K562	blood:
4	chr9:96791956..96794354-chr9:96926207..96931491,6	MCF-7	breast:
5	chr9:96840095..96841913-chr9:96929412..96931188,2	K562	blood:
6	chr9:96790823..96795467-chr9:96925835..96932235,7	K562	blood:
7	chr9:96845151..96850974-chr9:96927067..96931575,8	K562	blood:
8	chr1:113247853..113250339-chr9:96928983..96930846,2	K562	blood:
9	chr9:96792323..96794528-chr9:96927672..96930924,4	MCF-7	breast:
10	chr9:96573741..96576396-chr9:96929581..96932062,2	K562	blood:
11	chr9:96212877..96215443-chr9:96928941..96930763,2	K562	blood:
12	chr9:96834076..96836577-chr9:96929876..96932048,2	K562	blood:
13	chr9:96845151..96851769-chr9:96927067..96931565,10	K562	blood:

No data

Variant related genes	Relation type
ENSG00000155366	Chromatin interaction
ENSG00000188938	Chromatin interaction
ENSG00000048828	Chromatin interaction
ENSG00000158079	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10993081	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10993082	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10993083	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10993089	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10993091	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10993099	0.83[AFR][1000 genomes]
rs3909252	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4333674	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9792534	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[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	nsv482457	chr9:96813852-96996170	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	217 gene(s)	inside rSNPs	diseases
2	nsv831655	chr9:96834042-97042009	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking 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 miRNA miRNA target site	218 gene(s)	inside rSNPs	diseases
3	esv3435412	chr9:96924949-96935312	Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96927800-96930800	Active TSS	Colonic Mucosa	Colon
2	chr9:96927800-96930800	Active TSS	NHLF	lung
3	chr9:96927800-96931000	Active TSS	Fetal Kidney	kidney
4	chr9:96927800-96931200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr9:96927800-96931400	Active TSS	ES-I3 Cell Line	embryonic stem cell
6	chr9:96927800-96931600	Active TSS	HUES6 Cell Line	embryonic stem cell
7	chr9:96927800-96931600	Active TSS	HUES64 Cell Line	embryonic stem cell
8	chr9:96927800-96931600	Active TSS	iPS-15b Cell Line	embryonic stem cell
9	chr9:96927800-96932200	Active TSS	HSMMtube	muscle
10	chr9:96927800-96932600	Active TSS	HUES48 Cell Line	embryonic stem cell
11	chr9:96927800-96932600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr9:96927800-96932800	Active TSS	Aorta	Aorta
13	chr9:96927800-96933200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr9:96928000-96930600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
15	chr9:96928000-96930800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr9:96928000-96930800	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr9:96928000-96930800	Active TSS	Duodenum Mucosa	Duodenum
18	chr9:96928000-96931000	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr9:96928000-96931000	Active TSS	H9 Cell Line	embryonic stem cell
20	chr9:96928000-96931000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
21	chr9:96928000-96931000	Active TSS	HSMM	muscle
22	chr9:96928000-96931000	Active TSS	NHDF-Ad	bronchial
23	chr9:96928000-96931200	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr9:96928000-96931200	Active TSS	Ovary	ovary
25	chr9:96928000-96931400	Active TSS	H1 Cell Line	embryonic stem cell
26	chr9:96928000-96931400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr9:96928000-96932600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr9:96928000-96932800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr9:96928000-96932800	Active TSS	Psoas Muscle	Psoas
30	chr9:96928200-96930600	Active TSS	Primary T cells fromperipheralblood	blood
31	chr9:96928200-96930600	Active TSS	Placenta	Placenta
32	chr9:96928200-96930600	Active TSS	Fetal Thymus	thymus
33	chr9:96928200-96930800	Active TSS	Fetal Intestine Small	intestine
34	chr9:96928200-96930800	Active TSS	Fetal Stomach	stomach
35	chr9:96928200-96930800	Active TSS	Rectal Mucosa Donor 29	rectum
36	chr9:96928200-96930800	Active TSS	GM12878-XiMat	blood
37	chr9:96928200-96930800	Active TSS	Hela-S3	cervix
38	chr9:96928200-96931000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr9:96928200-96931000	Active TSS	Muscle Satellite Cultured Cells	--
40	chr9:96928200-96931000	Active TSS	Fetal Intestine Large	intestine
41	chr9:96928200-96931000	Active TSS	Fetal Muscle Leg	muscle
42	chr9:96928200-96931200	Active TSS	Breast Myoepithelial Primary Cells	Breast
43	chr9:96928200-96931200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr9:96928200-96931400	Active TSS	Thymus	Thymus
45	chr9:96928200-96931600	Active TSS	NH-A	brain
46	chr9:96928200-96931800	Active TSS	Left Ventricle	heart
47	chr9:96928200-96932800	Active TSS	Right Ventricle	heart
48	chr9:96928200-96932800	Active TSS	HMEC	breast
49	chr9:96928400-96931200	Active TSS	Fetal Muscle Trunk	muscle
50	chr9:96928600-96930600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell

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