Variant report

Variant	rs10120783
Chromosome Location	chr9:116976246-116976247
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:116894155..116895740-chr9:116974243..116977042,2	K562	blood:
2	chr9:116928012..116930708-chr9:116975484..116977425,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000196739	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10116561	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10118296	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10119723	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10119750	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10119751	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10119877	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10120779	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10121745	1.00[EUR][1000 genomes]
rs10121923	1.00[AFR][1000 genomes]
rs10122722	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10982104	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10982106	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10982108	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12115652	1.00[EUR][1000 genomes]
rs12115691	1.00[EUR][1000 genomes]
rs12353056	1.00[EUR][1000 genomes]
rs28459368	1.00[EUR][1000 genomes]
rs28461407	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28545589	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28578933	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs57238217	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs58901436	1.00[EUR][1000 genomes]
rs59359176	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60666664	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60869479	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61063356	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73562583	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:27 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430093	chr9:116330446-117325446	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
2	esv2422396	chr9:116792944-117354862	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	155 gene(s)	inside rSNPs	diseases
3	esv2422492	chr9:116811294-117366643	Genic enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	155 gene(s)	inside rSNPs	diseases
4	esv2761285	chr9:116811897-117103268	Genic enhancers Weak transcription Flanking Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	128 gene(s)	inside rSNPs	diseases
5	nsv870215	chr9:116842614-117070344	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	124 gene(s)	inside rSNPs	diseases
6	nsv466533	chr9:116930100-117248479	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	128 gene(s)	inside rSNPs	diseases
7	nsv615233	chr9:116930100-117248479	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	128 gene(s)	inside rSNPs	diseases
8	nsv1051544	chr9:116944940-117443031	ZNF genes & repeats Genic enhancers Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
9	nsv540203	chr9:116944940-117443031	Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
10	nsv1048093	chr9:116945025-117456210	Active TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
11	nsv1050991	chr9:116953739-117442999	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
12	nsv1046311	chr9:116953739-117447142	Genic enhancers Transcr. at gene 5' and 3' Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
13	nsv1052877	chr9:116953739-117456210	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
14	nsv1039681	chr9:116953739-117457158	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
15	nsv1051987	chr9:116955841-117453668	Flanking Active TSS Strong transcription Active TSS Weak transcription Genic enhancers Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
16	nsv1044374	chr9:116955841-117460150	Genic enhancers Active TSS Transcr. at gene 5' and 3' Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
17	nsv466534	chr9:116956268-117455810	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
18	nsv615234	chr9:116956268-117455810	Enhancers Strong transcription Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
19	nsv1048817	chr9:116957958-117456210	Flanking Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
20	nsv615235	chr9:116958144-117367061	ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	148 gene(s)	inside rSNPs	diseases
21	nsv615236	chr9:116958144-117455810	Strong transcription Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
22	nsv466535	chr9:116958144-117456175	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription 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 miRNA target site	157 gene(s)	inside rSNPs	diseases
23	nsv615237	chr9:116958144-117456175	Strong transcription Active TSS Genic enhancers Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
24	nsv615238	chr9:116958144-117458475	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers 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 miRNA target site	157 gene(s)	inside rSNPs	diseases
25	nsv430094	chr9:116958446-117456446	Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
26	nsv1053756	chr9:116975934-117443031	Enhancers Genic enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
27	nsv540204	chr9:116975934-117443031	Genic enhancers Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116952400-116986600	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr9:116953400-116985800	Weak transcription	A549	lung
3	chr9:116954600-116986000	Weak transcription	Hela-S3	cervix
4	chr9:116966400-116978200	Weak transcription	Lung	lung
5	chr9:116967000-116980000	Genic enhancers	Fetal Muscle Trunk	muscle
6	chr9:116967800-116977400	Strong transcription	Liver	Liver
7	chr9:116967800-116986000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr9:116968400-116980000	Enhancers	Fetal Heart	heart
9	chr9:116968600-116985600	Strong transcription	HepG2	liver
10	chr9:116969800-116976600	Weak transcription	Fetal Brain Male	brain
11	chr9:116969800-116977000	Weak transcription	Fetal Thymus	thymus
12	chr9:116969800-116981400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr9:116969800-116986000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr9:116969800-116986000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr9:116969800-116993400	Weak transcription	Stomach Mucosa	stomach
16	chr9:116970000-116977400	Weak transcription	Colon Smooth Muscle	Colon
17	chr9:116970000-116978200	Weak transcription	Brain Anterior Caudate	brain
18	chr9:116970000-116978400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr9:116970000-116982800	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr9:116970000-116987400	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr9:116970200-116976400	Weak transcription	Stomach Smooth Muscle	stomach
22	chr9:116970200-116976600	Weak transcription	HMEC	breast
23	chr9:116970200-116977000	Strong transcription	Fetal Intestine Small	intestine
24	chr9:116970200-116977200	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr9:116970200-116977400	Strong transcription	Fetal Intestine Large	intestine
26	chr9:116970200-116977400	Weak transcription	Rectal Smooth Muscle	rectum
27	chr9:116970200-116978200	Weak transcription	Brain Cingulate Gyrus	brain
28	chr9:116970200-116978600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr9:116970400-116976400	Weak transcription	Right Atrium	heart
30	chr9:116970400-116978200	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr9:116970400-116979400	Enhancers	Skeletal Muscle Female	skeletal muscle
32	chr9:116970400-116981400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr9:116970400-116985800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr9:116971000-116977600	Genic enhancers	Fetal Muscle Leg	muscle
35	chr9:116971200-116977800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr9:116971400-116976800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr9:116972000-116979800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr9:116972200-116978200	Weak transcription	Gastric	stomach
39	chr9:116972600-116976600	Weak transcription	Spleen	Spleen
40	chr9:116973400-116976400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr9:116973400-116987600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr9:116973400-117047000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
43	chr9:116973600-116976400	Weak transcription	Adipose Nuclei	Adipose
44	chr9:116973600-116976400	Weak transcription	Psoas Muscle	Psoas
45	chr9:116973800-116977400	Strong transcription	HUES6 Cell Line	embryonic stem cell
46	chr9:116973800-116978000	Weak transcription	Pancreas	Pancrea
47	chr9:116974000-116976800	Weak transcription	Ovary	ovary
48	chr9:116974000-116987400	Weak transcription	HUES48 Cell Line	embryonic stem cell
49	chr9:116974400-116978800	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr9:116974400-116978800	Enhancers	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links