Variant report

Variant	rs490607
Chromosome Location	chr10:116154741-116154742
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:116148220..116151013-chr10:116151881..116155168,3	MCF-7	breast:
2	chr10:116151670..116155313-chr10:116155442..116158491,3	MCF-7	breast:
3	chr10:116151729..116154077-chr10:116154696..116157816,3	K562	blood:

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10885559	0.83[EUR][1000 genomes]
rs11196723	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196729	0.84[EUR][1000 genomes]
rs7088296	0.82[ASN][1000 genomes]
rs7089635	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037308	chr10:116141946-116519765	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv540780	chr10:116141946-116519765	Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116134000-116157600	Weak transcription	Colonic Mucosa	Colon
2	chr10:116146400-116157000	Enhancers	HMEC	breast
3	chr10:116149000-116155600	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr10:116149000-116160000	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr10:116150800-116155200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr10:116151400-116155000	Genic enhancers	Fetal Stomach	stomach
7	chr10:116151600-116157000	Enhancers	Fetal Muscle Leg	muscle
8	chr10:116151600-116158400	Enhancers	GM12878-XiMat	blood
9	chr10:116151800-116162600	Weak transcription	Lung	lung
10	chr10:116152400-116154800	Enhancers	Placenta Amnion	Placenta Amnion
11	chr10:116152600-116155800	Enhancers	Fetal Muscle Trunk	muscle
12	chr10:116152800-116154800	Enhancers	Fetal Thymus	thymus
13	chr10:116152800-116155400	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr10:116152800-116156600	Enhancers	Brain Anterior Caudate	brain
15	chr10:116152800-116158800	Enhancers	Rectal Smooth Muscle	rectum
16	chr10:116153000-116154800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr10:116153200-116155200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr10:116153200-116155600	Enhancers	NHEK	skin
19	chr10:116153200-116157000	Enhancers	Brain Substantia Nigra	brain
20	chr10:116153200-116162600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr10:116153600-116157400	Weak transcription	Fetal Kidney	kidney
22	chr10:116153800-116154800	Enhancers	Esophagus	oesophagus
23	chr10:116153800-116155000	Enhancers	Stomach Smooth Muscle	stomach
24	chr10:116153800-116157200	Weak transcription	A549	lung
25	chr10:116154000-116155200	Bivalent Enhancer	Brain Cingulate Gyrus	brain
26	chr10:116154000-116156200	Weak transcription	Fetal Lung	lung
27	chr10:116154000-116156600	Weak transcription	Right Atrium	heart
28	chr10:116154000-116159200	Enhancers	Spleen	Spleen
29	chr10:116154200-116155800	Enhancers	Primary hematopoietic stem cells	blood
30	chr10:116154200-116156600	Weak transcription	Ovary	ovary
31	chr10:116154200-116161200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr10:116154400-116155000	Bivalent Enhancer	Brain Hippocampus Middle	brain
33	chr10:116154400-116155800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr10:116154400-116155800	Enhancers	Brain Angular Gyrus	brain
35	chr10:116154600-116154800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr10:116154600-116155000	Enhancers	Pancreas	Pancrea
37	chr10:116154600-116156200	Enhancers	Primary hematopoietic stem cells short term culture	blood
38	chr10:116154600-116157200	Enhancers	Breast Myoepithelial Primary Cells	Breast
39	chr10:116154600-116157600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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