Variant report

Variant	rs7872953
Chromosome Location	chr9:104297693-104297694
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11793946	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs13287159	1.00[AFR][1000 genomes]
rs13289614	1.00[AFR][1000 genomes]
rs13292935	1.00[AFR][1000 genomes]
rs16920437	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16920441	1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16920477	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16920487	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs16920497	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs16920501	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1929483	0.81[ASN][1000 genomes]
rs2181561	1.00[AFR][1000 genomes]
rs2417270	1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2417271	1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28411396	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35320813	1.00[AFR][1000 genomes]
rs35698290	1.00[AFR][1000 genomes]
rs35778437	1.00[AFR][1000 genomes]
rs36074111	1.00[AFR][1000 genomes]
rs3813523	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs41282149	1.00[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs41282153	1.00[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs41282155	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs41306471	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs45587135	0.94[ASN][1000 genomes]
rs56742090	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs56998622	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59048832	0.94[AMR][1000 genomes]
rs61437380	0.94[AMR][1000 genomes]
rs62000403	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs62575836	1.00[ASN][1000 genomes]
rs62575837	1.00[ASN][1000 genomes]
rs71509736	1.00[AFR][1000 genomes]
rs72745305	1.00[ASN][1000 genomes]
rs73659558	0.89[AMR][1000 genomes]
rs7859863	0.88[ASN][1000 genomes]
rs7873986	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9792479	0.91[AMR][1000 genomes]
rs9792648	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs989900	1.00[AFR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs989901	1.00[AFR][1000 genomes];0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046975	chr9:104167583-104659873	Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv893626	chr9:104172936-104324545	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv949579	chr9:104229820-104512923	Genic enhancers Enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv1052492	chr9:104263419-104387782	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
5	nsv893627	chr9:104268342-104334333	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Enhancers 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	5 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	chr9:104295600-104297800	Active TSS	Primary hematopoietic stem cells short term culture	blood
2	chr9:104296600-104301800	Weak transcription	Spleen	Spleen
3	chr9:104296800-104297800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
4	chr9:104296800-104297800	Weak transcription	Left Ventricle	heart
5	chr9:104296800-104298000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr9:104296800-104298000	Weak transcription	Placenta	Placenta
7	chr9:104296800-104298200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
8	chr9:104296800-104298200	Weak transcription	Small Intestine	intestine
9	chr9:104296800-104299000	Weak transcription	Gastric	stomach
10	chr9:104296800-104299200	Weak transcription	Pancreas	Pancrea
11	chr9:104296800-104299400	Enhancers	Primary T killer memory cells from peripheral blood	blood
12	chr9:104296800-104300400	Enhancers	Fetal Heart	heart
13	chr9:104296800-104300600	Weak transcription	Esophagus	oesophagus
14	chr9:104296800-104302600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr9:104296800-104302600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr9:104296800-104302600	Weak transcription	Lung	lung
17	chr9:104296800-104302800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr9:104296800-104302800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr9:104296800-104305800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr9:104296800-104334200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
21	chr9:104296800-104337400	Weak transcription	Stomach Mucosa	stomach
22	chr9:104297000-104297800	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr9:104297000-104297800	Enhancers	Primary B cells from cord blood	blood
24	chr9:104297000-104297800	Enhancers	Primary T cells fromperipheralblood	blood
25	chr9:104297000-104297800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr9:104297000-104297800	Enhancers	Brain Anterior Caudate	brain
27	chr9:104297000-104297800	Enhancers	Brain Substantia Nigra	brain
28	chr9:104297000-104297800	Enhancers	Fetal Intestine Large	intestine
29	chr9:104297000-104297800	Weak transcription	Fetal Muscle Leg	muscle
30	chr9:104297000-104297800	Enhancers	Skeletal Muscle Male	skeletal muscle
31	chr9:104297000-104297800	Weak transcription	NHLF	lung
32	chr9:104297000-104298000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr9:104297000-104298000	Enhancers	Liver	Liver
34	chr9:104297000-104298200	Enhancers	Primary T helper naive cells from peripheral blood	blood
35	chr9:104297000-104298200	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr9:104297000-104298600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
37	chr9:104297000-104298800	Weak transcription	H9 Cell Line	embryonic stem cell
38	chr9:104297000-104298800	Weak transcription	Right Atrium	heart
39	chr9:104297000-104299000	Weak transcription	Psoas Muscle	Psoas
40	chr9:104297000-104299200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr9:104297000-104299200	Weak transcription	Ovary	ovary
42	chr9:104297000-104299400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr9:104297000-104302000	Weak transcription	Fetal Stomach	stomach
44	chr9:104297000-104302600	Weak transcription	Colonic Mucosa	Colon
45	chr9:104297000-104302600	Weak transcription	NH-A	brain
46	chr9:104297000-104302800	Weak transcription	Placenta Amnion	Placenta Amnion
47	chr9:104297000-104302800	Weak transcription	HSMMtube	muscle
48	chr9:104297000-104309200	Weak transcription	HUVEC	blood vessel
49	chr9:104297000-104317600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
50	chr9:104297200-104297800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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