Variant report

Variant	rs499098
Chromosome Location	chr15:73584784-73584785
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	chr15:73580564..73583381-chr15:73583937..73588117,3	K562	blood:
2	chr15:73580141..73581927-chr15:73584646..73586170,2	K562	blood:

Variant related genes	Relation type
ENSG00000067141	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs11072404	1.00[CEU][hapmap];0.82[CHD][hapmap];0.94[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1320241	1.00[CEU][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1479336	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1620369	1.00[CEU][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1621216	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1631796	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1678246	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1678247	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs16957640	1.00[CEU][hapmap];0.82[CHD][hapmap]
rs1871387	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1960423	0.99[ASN][1000 genomes]
rs2619257	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2619258	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2623989	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2623991	1.00[CEU][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2623992	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2623999	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2624000	0.82[EUR][1000 genomes]
rs2660822	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2660825	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2660828	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2680336	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2680337	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2680342	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2680345	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2680346	1.00[CEU][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4564531	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4570800	1.00[CEU][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs471192	1.00[CEU][hapmap];0.90[CHB][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4776627	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4776629	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs481579	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs484515	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs484544	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs489873	1.00[CEU][hapmap];0.90[CHB][hapmap];0.88[CHD][hapmap];0.94[GIH][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs494493	1.00[CEU][hapmap];0.90[CHB][hapmap];0.88[CHD][hapmap];0.83[GIH][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs497539	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs513744	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs525587	1.00[CEU][hapmap];0.90[CHB][hapmap];0.83[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs529004	1.00[CEU][hapmap];0.90[CHB][hapmap];0.88[CHD][hapmap];0.82[GIH][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs542259	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs549377	0.82[CHB][hapmap];0.94[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs553238	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs55787640	0.83[EUR][1000 genomes]
rs561929	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6495056	1.00[CEU][hapmap];0.82[CHD][hapmap]
rs66881913	0.83[EUR][1000 genomes]
rs66931013	0.83[EUR][1000 genomes]
rs68053508	0.88[EUR][1000 genomes]
rs68123262	0.83[EUR][1000 genomes]
rs7163504	1.00[CEU][hapmap]
rs7168651	0.83[EUR][1000 genomes]
rs7168829	0.83[EUR][1000 genomes]
rs7170328	1.00[CEU][hapmap]
rs7177629	0.85[CEU][hapmap];0.83[JPT][hapmap]
rs8037761	1.00[CEU][hapmap];0.82[CHD][hapmap];0.94[GIH][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8039308	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8041219	1.00[CEU][hapmap]
rs9806271	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904343	chr15:73396760-73775043	Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73535200-73588000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr15:73536200-73602000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr15:73538000-73593400	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr15:73540000-73584800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr15:73546800-73588600	Weak transcription	Spleen	Spleen
6	chr15:73552400-73588200	Weak transcription	Hela-S3	cervix
7	chr15:73552800-73598400	Weak transcription	Small Intestine	intestine
8	chr15:73560800-73597200	Strong transcription	Rectal Mucosa Donor 31	rectum
9	chr15:73563200-73598600	Weak transcription	Stomach Mucosa	stomach
10	chr15:73563400-73585600	Strong transcription	Fetal Intestine Large	intestine
11	chr15:73563600-73593600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr15:73566400-73597800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr15:73568600-73600800	Strong transcription	Rectal Mucosa Donor 29	rectum
14	chr15:73570200-73597000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
15	chr15:73570400-73597000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr15:73571200-73601400	Strong transcription	Fetal Stomach	stomach
17	chr15:73572400-73587600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr15:73574000-73596800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr15:73574800-73588000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr15:73575600-73585600	Weak transcription	HepG2	liver
21	chr15:73576000-73586400	Strong transcription	Skeletal Muscle Female	skeletal muscle
22	chr15:73576200-73585600	Weak transcription	Esophagus	oesophagus
23	chr15:73576200-73587600	Weak transcription	Right Ventricle	heart
24	chr15:73576400-73594600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr15:73576600-73585000	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr15:73577600-73585200	Strong transcription	Fetal Muscle Trunk	muscle
27	chr15:73577800-73586600	Strong transcription	Stomach Smooth Muscle	stomach
28	chr15:73577800-73598200	Strong transcription	Duodenum Mucosa	Duodenum
29	chr15:73578000-73586400	Strong transcription	Sigmoid Colon	Sigmoid Colon
30	chr15:73578200-73590600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr15:73578600-73586400	Strong transcription	Left Ventricle	heart
32	chr15:73579000-73590400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr15:73579200-73586400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr15:73579200-73598200	Weak transcription	Psoas Muscle	Psoas
35	chr15:73579800-73591400	Strong transcription	Rectal Smooth Muscle	rectum
36	chr15:73580000-73587200	Weak transcription	Colonic Mucosa	Colon
37	chr15:73580400-73594400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
38	chr15:73581600-73598000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr15:73581800-73588000	Weak transcription	HMEC	breast
40	chr15:73582000-73585400	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr15:73582000-73587600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr15:73582000-73588200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr15:73582000-73589400	Weak transcription	Fetal Brain Male	brain
44	chr15:73582000-73590400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
45	chr15:73582000-73590600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr15:73582000-73595200	Weak transcription	Primary T cells fromperipheralblood	blood
47	chr15:73582000-73598000	Weak transcription	Fetal Heart	heart
48	chr15:73582200-73589400	Weak transcription	Colon Smooth Muscle	Colon
49	chr15:73582200-73590600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
50	chr15:73582200-73590800	Weak transcription	A549	lung

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