Variant report

Variant	rs3802450
Chromosome Location	chr9:97825742-97825743
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97824520..97826312-chr9:97836081..97838714,2	MCF-7	breast:
2	chr9:97805422..97807754-chr9:97822770..97825763,2	MCF-7	breast:
3	chr9:97815246..97817675-chr9:97824890..97827452,2	MCF-7	breast:
4	chr9:97825460..97828452-chr9:97831131..97835733,4	MCF-7	breast:
5	chr9:97766135..97768403-chr9:97824891..97827556,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000148120	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12683030	0.86[ASN][1000 genomes]
rs12683564	1.00[ASN][1000 genomes]
rs12683692	0.95[ASN][1000 genomes]
rs3802449	0.86[ASN][1000 genomes]
rs4647549	0.91[ASN][1000 genomes]
rs72750391	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases
2	nsv1038106	chr9:97793038-97881416	Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
3	nsv1038523	chr9:97797032-97923774	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
4	nsv540175	chr9:97797032-97923774	Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97813000-97873000	Weak transcription	K562	blood
2	chr9:97813400-97827200	Genic enhancers	Liver	Liver
3	chr9:97817600-97826000	Genic enhancers	HepG2	liver
4	chr9:97817600-97826400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr9:97818800-97830400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr9:97819800-97826000	Genic enhancers	HSMM	muscle
7	chr9:97820000-97854200	Weak transcription	Fetal Brain Male	brain
8	chr9:97820400-97840800	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr9:97820400-97843000	Weak transcription	Primary T cells from cord blood	blood
10	chr9:97820600-97875000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr9:97821000-97838400	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr9:97821200-97839000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr9:97821200-97839600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr9:97821400-97827200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr9:97821400-97843200	Weak transcription	Fetal Brain Female	brain
16	chr9:97821600-97828200	Enhancers	Primary hematopoietic stem cells	blood
17	chr9:97821800-97829600	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
18	chr9:97821800-97835600	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr9:97822000-97834600	Strong transcription	Hela-S3	cervix
20	chr9:97822200-97825800	Genic enhancers	HSMMtube	muscle
21	chr9:97822200-97826600	Genic enhancers	Brain Anterior Caudate	brain
22	chr9:97822200-97833200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr9:97822800-97826600	Genic enhancers	Esophagus	oesophagus
24	chr9:97822800-97828200	Genic enhancers	Fetal Muscle Leg	muscle
25	chr9:97822800-97830000	Enhancers	Psoas Muscle	Psoas
26	chr9:97822800-97830200	Genic enhancers	Left Ventricle	heart
27	chr9:97822800-97831600	Genic enhancers	Muscle Satellite Cultured Cells	--
28	chr9:97822800-97832800	Genic enhancers	Skeletal Muscle Male	skeletal muscle
29	chr9:97822800-97845400	Weak transcription	Primary B cells from cord blood	blood
30	chr9:97823000-97826200	Strong transcription	Rectal Mucosa Donor 29	rectum
31	chr9:97823000-97826600	Genic enhancers	Brain Inferior Temporal Lobe	brain
32	chr9:97823200-97826400	Genic enhancers	Brain Angular Gyrus	brain
33	chr9:97823200-97827400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr9:97823400-97826600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr9:97823400-97828200	Genic enhancers	Duodenum Mucosa	Duodenum
36	chr9:97823400-97828200	Genic enhancers	Gastric	stomach
37	chr9:97823400-97830000	Genic enhancers	Pancreas	Pancrea
38	chr9:97823600-97827000	Strong transcription	NHDF-Ad	bronchial
39	chr9:97823600-97827000	Strong transcription	Osteobl	bone
40	chr9:97823600-97834600	Strong transcription	NH-A	brain
41	chr9:97823600-97845000	Weak transcription	Primary T helper cells PMA-I stimulated	--
42	chr9:97824000-97826000	Strong transcription	Sigmoid Colon	Sigmoid Colon
43	chr9:97824000-97827800	Strong transcription	Placenta Amnion	Placenta Amnion
44	chr9:97824000-97828800	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr9:97824200-97825800	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr9:97824200-97825800	Genic enhancers	Fetal Stomach	stomach
47	chr9:97824200-97825800	Genic enhancers	Lung	lung
48	chr9:97824200-97826000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr9:97824200-97826200	Genic enhancers	Ovary	ovary
50	chr9:97824200-97826400	Genic enhancers	Brain Hippocampus Middle	brain

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