Variant report

Variant	rs10988709
Chromosome Location	chr9:101878961-101878962
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:101877984..101880524-chr9:101882685..101887051,4	K562	blood:
2	chr9:101834831..101839915-chr9:101875600..101879100,5	K562	blood:
3	chr9:101877300..101879132-chr9:101895213..101897266,2	K562	blood:
4	chr9:101878794..101881758-chr9:101887608..101891012,3	K562	blood:

Variant related genes	Relation type
ENSG00000106799	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10733708	0.84[ASN][1000 genomes]
rs10733709	0.91[CHB][hapmap];0.91[ASN][1000 genomes]
rs10739778	0.82[ASN][1000 genomes]
rs10760668	0.94[ASN][1000 genomes]
rs10760669	0.96[ASN][1000 genomes]
rs10760670	0.84[ASN][1000 genomes]
rs10760671	1.00[CHB][hapmap];0.83[JPT][hapmap];0.96[ASN][1000 genomes]
rs10760672	1.00[CHB][hapmap];0.83[JPT][hapmap];0.96[ASN][1000 genomes]
rs10760673	1.00[CHB][hapmap];0.82[JPT][hapmap];0.96[ASN][1000 genomes]
rs10760674	0.90[ASN][1000 genomes]
rs10819636	0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10819638	1.00[CHB][hapmap];0.83[JPT][hapmap];0.96[ASN][1000 genomes]
rs10819640	1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10988706	1.00[CHB][hapmap];0.83[JPT][hapmap];0.96[ASN][1000 genomes]
rs10988713	0.87[JPT][hapmap];0.94[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10988715	1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10988716	1.00[CHB][hapmap];0.83[JPT][hapmap];0.96[ASN][1000 genomes]
rs10988717	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10988723	0.90[ASN][1000 genomes]
rs11568752	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11568753	0.87[CHB][hapmap];0.83[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11568770	0.91[CHB][hapmap];0.83[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11568778	0.91[CHB][hapmap];0.82[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12346650	0.95[CHB][hapmap];0.81[ASN][1000 genomes]
rs12685571	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12686782	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1571589	0.84[ASN][1000 genomes]
rs1590	0.81[ASN][1000 genomes]
rs1699413	0.92[ASN][1000 genomes]
rs1888225	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1973518	0.90[ASN][1000 genomes]
rs2026811	0.82[ASN][1000 genomes]
rs334348	0.81[ASN][1000 genomes]
rs334349	0.81[ASN][1000 genomes]
rs334351	0.95[ASN][1000 genomes]
rs334353	1.00[CHB][hapmap];0.82[JPT][hapmap];0.95[ASN][1000 genomes]
rs334354	1.00[CHB][hapmap];0.82[JPT][hapmap];0.96[ASN][1000 genomes]
rs334355	0.82[ASN][1000 genomes]
rs334362	0.90[ASN][1000 genomes]
rs334363	0.91[ASN][1000 genomes]
rs334364	0.91[ASN][1000 genomes]
rs334366	0.91[ASN][1000 genomes]
rs334367	0.91[ASN][1000 genomes]
rs334370	0.89[ASN][1000 genomes]
rs3739798	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs44466	0.88[ASN][1000 genomes]
rs597457	1.00[CHB][hapmap];0.83[JPT][hapmap];0.95[ASN][1000 genomes]
rs6478972	0.84[ASN][1000 genomes]
rs6478973	0.96[ASN][1000 genomes]
rs7031302	0.84[ASN][1000 genomes]
rs7031309	0.84[ASN][1000 genomes]
rs7041311	0.91[CHB][hapmap];0.83[JPT][hapmap]
rs7042852	0.91[CHB][hapmap];0.90[ASN][1000 genomes]
rs7043624	0.82[CHB][hapmap];0.82[ASN][1000 genomes]
rs7874221	1.00[CHB][hapmap];0.82[JPT][hapmap];0.96[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	nsv893618	chr9:101800106-101886071	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv893619	chr9:101835165-101936231	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv831666	chr9:101874985-102018690	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS 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	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101868400-101881400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:101868400-101896400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr9:101868600-101889800	Weak transcription	Ovary	ovary
4	chr9:101868600-101894400	Weak transcription	Fetal Muscle Trunk	muscle
5	chr9:101869200-101881600	Weak transcription	Fetal Intestine Small	intestine
6	chr9:101869200-101884800	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr9:101869600-101879400	Weak transcription	Placenta	Placenta
8	chr9:101869800-101884800	Weak transcription	A549	lung
9	chr9:101870000-101879800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr9:101870000-101908600	Weak transcription	Brain Germinal Matrix	brain
11	chr9:101870200-101879200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr9:101870400-101881400	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr9:101870600-101881200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
14	chr9:101870600-101889800	Weak transcription	NHLF	lung
15	chr9:101872600-101881200	Weak transcription	HSMM	muscle
16	chr9:101872600-101887800	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr9:101873800-101879200	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr9:101874000-101879200	Enhancers	Duodenum Smooth Muscle	Duodenum
19	chr9:101874000-101880000	Enhancers	Skeletal Muscle Male	skeletal muscle
20	chr9:101874200-101879000	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr9:101874400-101879000	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr9:101874400-101879000	Enhancers	iPS-18 Cell Line	embryonic stem cell
23	chr9:101874400-101879200	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr9:101874600-101880800	Enhancers	Primary neutrophils fromperipheralblood	blood
25	chr9:101874600-101881000	Weak transcription	Left Ventricle	heart
26	chr9:101874600-101881600	Weak transcription	Right Atrium	heart
27	chr9:101874600-101889800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr9:101875000-101879600	Enhancers	Primary hematopoietic stem cells short term culture	blood
29	chr9:101875400-101879200	Enhancers	Primary T helper naive cells from peripheral blood	blood
30	chr9:101875400-101881000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
31	chr9:101875600-101879800	Enhancers	iPS-20b Cell Line	embryonic stem cell
32	chr9:101875600-101894600	Weak transcription	Spleen	Spleen
33	chr9:101875800-101880800	Weak transcription	Primary B cells from peripheral blood	blood
34	chr9:101875800-101881000	Enhancers	Primary T helper cells PMA-I stimulated	--
35	chr9:101875800-101881200	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr9:101875800-101881200	Enhancers	Primary T killer memory cells from peripheral blood	blood
37	chr9:101875800-101881400	Enhancers	Primary T helper cells fromperipheralblood	blood
38	chr9:101876000-101880600	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr9:101876200-101881200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
40	chr9:101876400-101879000	Enhancers	HUES48 Cell Line	embryonic stem cell
41	chr9:101876400-101879200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
42	chr9:101876400-101881000	Enhancers	Primary T cells from cord blood	blood
43	chr9:101876400-101881200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
44	chr9:101876400-101881200	Weak transcription	Duodenum Mucosa	Duodenum
45	chr9:101876400-101889400	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr9:101876600-101879800	Enhancers	Primary T cells fromperipheralblood	blood
47	chr9:101876600-101880600	Weak transcription	GM12878-XiMat	blood
48	chr9:101876600-101904200	Weak transcription	Liver	Liver
49	chr9:101876800-101879000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr9:101876800-101879000	Enhancers	NHDF-Ad	bronchial

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