Variant report

Variant	rs10117803
Chromosome Location	chr9:15427790-15427791
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:15422934..15425831-chr9:15427630..15429287,2	K562	blood:
2	chr9:15420915..15423147-chr9:15426389..15428949,2	K562	blood:
3	chr9:15420595..15424773-chr9:15424796..15433036,11	MCF-7	breast:
4	chr9:15420090..15425077-chr9:15425243..15430966,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164975	Chromatin interaction

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10117375	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10117823	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10121012	0.83[AMR][1000 genomes]
rs10123651	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10125713	0.92[AMR][1000 genomes]
rs10962054	0.85[AMR][1000 genomes]
rs12337310	0.92[AMR][1000 genomes]
rs12344963	0.92[AMR][1000 genomes]
rs12350062	0.92[AMR][1000 genomes]
rs12350903	0.83[AMR][1000 genomes]
rs12859	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs175762	0.85[AMR][1000 genomes]
rs2064030	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs2488959	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2490849	0.94[ASN][1000 genomes]
rs2490850	0.89[ASN][1000 genomes]
rs2490851	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2490852	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2490853	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2490854	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2490855	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2490856	1.00[ASN][1000 genomes]
rs2490857	1.00[ASN][1000 genomes]
rs2490858	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2490859	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2665515	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs2737840	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs276445	0.83[AMR][1000 genomes]
rs276446	0.83[AMR][1000 genomes]
rs276450	0.83[AMR][1000 genomes]
rs276451	0.83[AMR][1000 genomes]
rs2777951	0.92[AMR][1000 genomes]
rs2795125	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs2795128	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2798701	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2798702	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2798703	1.00[ASN][1000 genomes]
rs2798704	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2798705	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2798717	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2804992	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2804993	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2804994	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2821525	0.92[AMR][1000 genomes]
rs2821529	0.85[AMR][1000 genomes]
rs2821530	0.92[AMR][1000 genomes]
rs2821543	0.83[AMR][1000 genomes]
rs2821544	0.83[AMR][1000 genomes]
rs28497163	0.85[AMR][1000 genomes]
rs28796681	0.83[AMR][1000 genomes]
rs28800775	0.83[AMR][1000 genomes]
rs3119700	0.83[AMR][1000 genomes]
rs3122705	0.83[AMR][1000 genomes]
rs3129711	0.83[AMR][1000 genomes]
rs365710	0.83[AMR][1000 genomes]
rs413356	0.83[AMR][1000 genomes]
rs418153	0.83[AMR][1000 genomes]
rs741930	0.92[AMR][1000 genomes]
rs7852936	0.92[AMR][1000 genomes]
rs796391	0.83[AMR][1000 genomes]
rs926154	0.92[AMR][1000 genomes]
rs9298729	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv517975	chr9:15286446-15534070	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers 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 target site	35 gene(s)	inside rSNPs	diseases
3	nsv1030287	chr9:15332709-15458001	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv892626	chr9:15389610-15694690	Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv892627	chr9:15397969-15909450	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	nsv831520	chr9:15404866-15444447	Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases
7	nsv892628	chr9:15420805-15528290	Strong transcription Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15423600-15434400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr9:15423600-15439000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:15424000-15430200	Weak transcription	Small Intestine	intestine
4	chr9:15424000-15431000	Weak transcription	Psoas Muscle	Psoas
5	chr9:15424000-15443400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr9:15424000-15443600	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr9:15424600-15427800	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
8	chr9:15424600-15428400	Strong transcription	Fetal Thymus	thymus
9	chr9:15424600-15430400	Strong transcription	HUES64 Cell Line	embryonic stem cell
10	chr9:15424800-15427800	Genic enhancers	Primary T helper cells PMA-I stimulated	--
11	chr9:15424800-15427800	Strong transcription	Placenta	Placenta
12	chr9:15424800-15428000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr9:15424800-15428400	Strong transcription	Fetal Muscle Trunk	muscle
14	chr9:15424800-15428800	Genic enhancers	Primary monocytes fromperipheralblood	blood
15	chr9:15424800-15430600	Strong transcription	HUES6 Cell Line	embryonic stem cell
16	chr9:15425000-15428600	Strong transcription	Fetal Stomach	stomach
17	chr9:15425000-15428600	Strong transcription	HSMM	muscle
18	chr9:15425000-15430000	Strong transcription	A549	lung
19	chr9:15425000-15430200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
20	chr9:15425000-15431800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr9:15425000-15437000	Strong transcription	HUES48 Cell Line	embryonic stem cell
22	chr9:15425400-15428800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr9:15425400-15433600	Weak transcription	Fetal Kidney	kidney
24	chr9:15425400-15439000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr9:15425600-15430200	Weak transcription	Stomach Mucosa	stomach
26	chr9:15425800-15431400	Strong transcription	HUVEC	blood vessel
27	chr9:15425800-15433800	Weak transcription	HSMMtube	muscle
28	chr9:15425800-15434000	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr9:15426000-15430200	Weak transcription	Right Ventricle	heart
30	chr9:15426000-15430600	Weak transcription	Colonic Mucosa	Colon
31	chr9:15426200-15441800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr9:15426400-15428000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
33	chr9:15426400-15428200	Enhancers	Primary B cells from cord blood	blood
34	chr9:15426400-15428400	Strong transcription	Cortex derived primary cultured neurospheres	brain
35	chr9:15426400-15430000	Weak transcription	Ovary	ovary
36	chr9:15426400-15430200	Weak transcription	Aorta	Aorta
37	chr9:15426400-15430600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr9:15426400-15430800	Weak transcription	Liver	Liver
39	chr9:15426400-15431000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr9:15426400-15431000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr9:15426400-15431000	Weak transcription	Left Ventricle	heart
42	chr9:15426400-15431000	Weak transcription	Lung	lung
43	chr9:15426400-15431000	Weak transcription	Pancreas	Pancrea
44	chr9:15426400-15433000	Weak transcription	NHLF	lung
45	chr9:15426400-15433600	Weak transcription	Primary T cells from cord blood	blood
46	chr9:15426400-15433600	Weak transcription	Thymus	Thymus
47	chr9:15426400-15434000	Weak transcription	Rectal Smooth Muscle	rectum
48	chr9:15426400-15435400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr9:15426400-15436000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr9:15426400-15439000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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