Variant report

Variant	rs12258328
Chromosome Location	chr10:98784597-98784598
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:98346758..98349089-chr10:98783035..98785459,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000077147	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs12262174	0.94[EUR][1000 genomes]
rs57812299	0.88[EUR][1000 genomes]
rs61034487	0.92[EUR][1000 genomes]
rs7082522	1.00[YRI][hapmap]
rs7083425	0.86[AFR][1000 genomes]
rs7083457	0.88[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	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1052931	chr10:98676192-98862301	Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv1042398	chr10:98691406-98851346	Enhancers Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98777600-98791000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr10:98778000-98797200	Strong transcription	Fetal Thymus	thymus
3	chr10:98778800-98794400	Weak transcription	Thymus	Thymus
4	chr10:98780600-98785200	Weak transcription	Duodenum Mucosa	Duodenum
5	chr10:98781000-98785200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr10:98781200-98785200	Weak transcription	Aorta	Aorta
7	chr10:98781200-98785200	Weak transcription	Left Ventricle	heart
8	chr10:98781200-98785400	Weak transcription	Brain Substantia Nigra	brain
9	chr10:98781200-98785800	Enhancers	Skeletal Muscle Male	skeletal muscle
10	chr10:98781200-98788400	Weak transcription	Brain Germinal Matrix	brain
11	chr10:98781200-98789600	Weak transcription	Brain Anterior Caudate	brain
12	chr10:98781200-98790400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr10:98781200-98790600	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr10:98781200-98791800	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr10:98781200-98792800	Weak transcription	Fetal Brain Male	brain
16	chr10:98781200-98794200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr10:98781200-98797000	Weak transcription	Gastric	stomach
18	chr10:98782000-98785200	Weak transcription	Brain Angular Gyrus	brain
19	chr10:98782000-98785200	Weak transcription	Brain Hippocampus Middle	brain
20	chr10:98782000-98785200	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr10:98782000-98785200	Weak transcription	Psoas Muscle	Psoas
22	chr10:98782000-98792400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr10:98782200-98785200	Weak transcription	Brain Cingulate Gyrus	brain
24	chr10:98782600-98785200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr10:98782600-98789600	Weak transcription	Fetal Brain Female	brain
26	chr10:98782800-98784800	Enhancers	Fetal Muscle Trunk	muscle
27	chr10:98783200-98784600	Enhancers	Primary hematopoietic stem cells short term culture	blood
28	chr10:98783200-98784600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr10:98783200-98785000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr10:98783200-98785400	Enhancers	HepG2	liver
31	chr10:98783400-98785600	Enhancers	Adipose Nuclei	Adipose
32	chr10:98783600-98784600	Flanking Active TSS	A549	lung
33	chr10:98783600-98784800	Enhancers	Ovary	ovary
34	chr10:98783600-98785400	Enhancers	Duodenum Smooth Muscle	Duodenum
35	chr10:98783800-98784600	Enhancers	Fetal Muscle Leg	muscle
36	chr10:98783800-98784800	Enhancers	Fetal Lung	lung
37	chr10:98784200-98784600	Enhancers	HSMM	muscle
38	chr10:98784200-98784600	Active TSS	NHLF	lung
39	chr10:98784200-98785200	Weak transcription	Rectal Smooth Muscle	rectum
40	chr10:98784200-98785200	Weak transcription	Small Intestine	intestine
41	chr10:98784200-98785200	Weak transcription	Stomach Mucosa	stomach
42	chr10:98784200-98785600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr10:98784200-98786800	Enhancers	Skeletal Muscle Female	skeletal muscle
44	chr10:98784200-98797000	Weak transcription	Pancreas	Pancrea
45	chr10:98784200-98797400	Weak transcription	Esophagus	oesophagus
46	chr10:98784400-98784600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr10:98784400-98784600	Enhancers	Stomach Smooth Muscle	stomach
48	chr10:98784400-98784600	Enhancers	GM12878-XiMat	blood
49	chr10:98784400-98784800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr10:98784400-98784800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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