Variant report

Variant	rs73655539
Chromosome Location	chr9:103191248-103191249
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:103108916..103110922-chr9:103189088..103192439,3	MCF-7	breast:
2	chr9:103108891..103111879-chr9:103188016..103191736,3	K562	blood:
3	chr9:103105076..103107773-chr9:103190189..103193187,3	MCF-7	breast:
4	chr9:103112743..103119519-chr9:103186928..103191502,9	MCF-7	breast:
5	chr9:101982434..101984283-chr9:103190237..103193103,2	MCF-7	breast:
6	chr9:103112020..103116853-chr9:103187928..103193300,12	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136891	Chromatin interaction
ENSG00000119523	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1016176	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1016177	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10989090	0.82[EUR][1000 genomes]
rs10989092	0.82[EUR][1000 genomes]
rs12237166	0.81[EUR][1000 genomes]
rs17740576	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17813447	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17813663	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17813801	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17813854	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2026998	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2151107	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35438121	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs41274963	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4395949	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs56179916	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56313595	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56720423	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs57241635	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58030694	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58698990	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs59668196	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs61306839	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61386923	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7046659	0.81[EUR][1000 genomes]
rs72733393	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72733395	0.87[EUR][1000 genomes]
rs72733397	0.86[EUR][1000 genomes]
rs72735110	0.81[EUR][1000 genomes]
rs73655529	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73655530	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73655531	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73655532	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73655533	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73655534	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73655535	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73655536	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73655537	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73655540	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73655541	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73655542	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73655543	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73655544	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73655545	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73655546	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73655547	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73655549	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73655550	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73655551	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73655553	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73655554	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][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	nsv893623	chr9:102648036-103405197	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS 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 target site	51 gene(s)	inside rSNPs	diseases
2	nsv825012	chr9:103152205-103256281	Flanking Active TSS Active TSS Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv614955	chr9:103181596-103261227	ZNF genes & repeats Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:103188800-103192800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr9:103190000-103191400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr9:103190000-103191800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr9:103190200-103191400	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr9:103190200-103191600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr9:103190200-103191600	Flanking Active TSS	Colon Smooth Muscle	Colon
7	chr9:103190200-103191600	Enhancers	Small Intestine	intestine
8	chr9:103190200-103191800	Flanking Active TSS	Brain Anterior Caudate	brain
9	chr9:103190400-103191400	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
10	chr9:103190400-103191400	Enhancers	Primary T cells fromperipheralblood	blood
11	chr9:103190400-103191400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
12	chr9:103190400-103191600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
13	chr9:103190400-103191600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
14	chr9:103190400-103191600	Flanking Active TSS	Brain Cingulate Gyrus	brain
15	chr9:103190400-103191600	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
16	chr9:103190400-103191600	Enhancers	Placenta	Placenta
17	chr9:103190400-103191600	Enhancers	Rectal Mucosa Donor 31	rectum
18	chr9:103190400-103191600	Flanking Active TSS	A549	lung
19	chr9:103190400-103191800	Enhancers	Primary T helper cells PMA-I stimulated	--
20	chr9:103190400-103191800	Flanking Active TSS	Fetal Brain Female	brain
21	chr9:103190400-103191800	Enhancers	Placenta Amnion	Placenta Amnion
22	chr9:103190400-103191800	Flanking Active TSS	HUVEC	blood vessel
23	chr9:103190400-103191800	Flanking Active TSS	Osteobl	bone
24	chr9:103190400-103192200	Enhancers	Left Ventricle	heart
25	chr9:103190400-103192200	Flanking Active TSS	Hela-S3	cervix
26	chr9:103190400-103192600	Weak transcription	Pancreas	Pancrea
27	chr9:103190400-103193000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr9:103190400-103206000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr9:103190400-103214200	Weak transcription	Thymus	Thymus
30	chr9:103190600-103191400	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr9:103190600-103191400	Flanking Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr9:103190600-103191600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr9:103190600-103191600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr9:103190600-103191600	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
35	chr9:103190600-103191600	Enhancers	Primary T helper naive cells from peripheral blood	blood
36	chr9:103190600-103191600	Enhancers	Primary T helper cells fromperipheralblood	blood
37	chr9:103190600-103191600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr9:103190600-103191600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr9:103190600-103191600	Enhancers	Psoas Muscle	Psoas
40	chr9:103190600-103191600	Flanking Active TSS	GM12878-XiMat	blood
41	chr9:103190600-103191600	Flanking Active TSS	NH-A	brain
42	chr9:103190600-103191600	Flanking Active TSS	NHDF-Ad	bronchial
43	chr9:103190600-103191600	Flanking Active TSS	NHLF	lung
44	chr9:103190600-103191800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
45	chr9:103190600-103191800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
46	chr9:103190600-103191800	Enhancers	Fetal Heart	heart
47	chr9:103190600-103191800	Enhancers	Right Atrium	heart
48	chr9:103190600-103191800	Flanking Active TSS	NHEK	skin
49	chr9:103190600-103192000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
50	chr9:103190600-103192000	Enhancers	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links