Variant report

Variant	rs9844499
Chromosome Location	chr3:45880730-45880731
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:45877879..45880836-chr3:45881346..45883533,3	K562	blood:

Variant related genes	Relation type
ENSG00000163818	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11130077	0.81[ASN][1000 genomes]
rs1129183	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13318088	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1488370	0.81[ASN][1000 genomes]
rs1883091	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1883092	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2286487	0.82[AFR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2531756	0.82[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs2633734	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2742364	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2742365	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28607988	0.85[AFR][1000 genomes]
rs3774643	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3774644	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45558831	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4683143	0.96[ASN][1000 genomes]
rs60103812	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61157369	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9823284	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9830944	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9849511	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9868648	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9882270	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv834678	chr3:45804294-46010256	Enhancers Flanking Bivalent TSS/Enh Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv3796	chr3:45850961-45886045	Strong transcription Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:45858000-45882600	Weak transcription	A549	lung
2	chr3:45858400-45881200	Strong transcription	Dnd41	blood
3	chr3:45860000-45882400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr3:45861000-45882400	Weak transcription	Small Intestine	intestine
5	chr3:45861000-45882400	Weak transcription	NHDF-Ad	bronchial
6	chr3:45861000-45882600	Weak transcription	Stomach Mucosa	stomach
7	chr3:45861000-45882600	Weak transcription	Hela-S3	cervix
8	chr3:45861200-45882400	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr3:45861200-45882600	Weak transcription	Right Ventricle	heart
10	chr3:45861400-45882200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr3:45861400-45882200	Weak transcription	Fetal Heart	heart
12	chr3:45861800-45882600	Weak transcription	NHLF	lung
13	chr3:45862000-45882800	Weak transcription	Psoas Muscle	Psoas
14	chr3:45862200-45882600	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr3:45862800-45882400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr3:45863400-45882600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr3:45864000-45881000	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr3:45864600-45882600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr3:45864800-45882600	Weak transcription	Colonic Mucosa	Colon
20	chr3:45865200-45882200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr3:45867600-45882600	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr3:45868600-45882400	Weak transcription	Fetal Brain Male	brain
23	chr3:45868600-45882400	Weak transcription	NHEK	skin
24	chr3:45868800-45882400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr3:45868800-45882600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr3:45870400-45882400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr3:45870400-45882800	Weak transcription	Gastric	stomach
28	chr3:45870800-45882400	Weak transcription	HMEC	breast
29	chr3:45870800-45882600	Weak transcription	K562	blood
30	chr3:45872400-45881600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
31	chr3:45872400-45882400	Weak transcription	HUES48 Cell Line	embryonic stem cell
32	chr3:45872400-45882400	Weak transcription	Monocytes-CD14+_RO01746	blood
33	chr3:45872400-45882600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr3:45872400-45882600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr3:45872400-45882800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr3:45872400-45883000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr3:45872600-45882400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr3:45872800-45882400	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr3:45873200-45880800	Weak transcription	HUES64 Cell Line	embryonic stem cell
40	chr3:45873400-45882200	Weak transcription	Pancreatic Islets	Pancreatic Islet
41	chr3:45873400-45882600	Weak transcription	Spleen	Spleen
42	chr3:45873600-45882600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr3:45873600-45882600	Weak transcription	Pancreas	Pancrea
44	chr3:45873600-45882800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr3:45873800-45882600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
46	chr3:45873800-45882600	Weak transcription	Ovary	ovary
47	chr3:45874600-45882600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr3:45874800-45882200	Weak transcription	Cortex derived primary cultured neurospheres	brain
49	chr3:45875000-45882600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr3:45875400-45882400	Weak transcription	Placenta Amnion	Placenta Amnion

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