Variant report

Variant	rs2299042
Chromosome Location	chr6:15464528-15464529
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15456622..15459538-chr6:15460887..15465633,6	MCF-7	breast:
2	chr6:15462939..15466980-chr6:15472777..15475550,3	K562	blood:
3	chr6:14816647..14817275-chr6:15464243..15464812,2	K562	blood:

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs2064097	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2179168	0.85[ASN][1000 genomes]
rs2237112	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2237130	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2237134	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2237135	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2237136	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2237137	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2237143	0.93[ASN][1000 genomes]
rs2282824	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2299038	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2299040	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2299041	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35720984	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3819398	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4715976	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6929454	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs760660	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7748741	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7763809	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs926309	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9370814	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9383058	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9396587	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[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	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15435800-15487600	Weak transcription	Colonic Mucosa	Colon
2	chr6:15440000-15468600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr6:15444600-15477400	Weak transcription	Hela-S3	cervix
4	chr6:15444800-15468800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr6:15445400-15474000	Weak transcription	NH-A	brain
6	chr6:15446600-15479800	Weak transcription	Gastric	stomach
7	chr6:15448200-15479800	Weak transcription	Pancreas	Pancrea
8	chr6:15452400-15475800	Weak transcription	Aorta	Aorta
9	chr6:15453000-15468600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr6:15453000-15481000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr6:15453600-15468800	Weak transcription	Dnd41	blood
12	chr6:15454200-15468800	Weak transcription	Fetal Muscle Trunk	muscle
13	chr6:15454200-15468800	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr6:15455200-15468800	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr6:15455400-15468000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr6:15455400-15468600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
17	chr6:15455400-15468800	Weak transcription	Fetal Intestine Large	intestine
18	chr6:15455400-15468800	Weak transcription	HepG2	liver
19	chr6:15455400-15469600	Weak transcription	Fetal Intestine Small	intestine
20	chr6:15455400-15475600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr6:15455400-15475600	Weak transcription	Esophagus	oesophagus
22	chr6:15455600-15468600	Weak transcription	K562	blood
23	chr6:15456400-15468600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr6:15456600-15467200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr6:15457000-15468800	Weak transcription	HMEC	breast
26	chr6:15457000-15480800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr6:15458400-15484200	Weak transcription	Small Intestine	intestine
28	chr6:15458800-15474600	Weak transcription	Pancreatic Islets	Pancreatic Islet
29	chr6:15459200-15464600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr6:15459200-15468600	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr6:15459400-15468600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr6:15459400-15468600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr6:15460400-15468600	Weak transcription	Primary B cells from peripheral blood	blood
34	chr6:15460400-15468800	Weak transcription	GM12878-XiMat	blood
35	chr6:15460600-15466400	Weak transcription	Brain Angular Gyrus	brain
36	chr6:15460600-15469000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr6:15460800-15464600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr6:15460800-15480000	Weak transcription	Stomach Mucosa	stomach
39	chr6:15461000-15468800	Weak transcription	Lung	lung
40	chr6:15461000-15468800	Weak transcription	Spleen	Spleen
41	chr6:15461200-15468800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr6:15461200-15472400	Weak transcription	Right Ventricle	heart
43	chr6:15461600-15468600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr6:15461600-15491000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
45	chr6:15461800-15468600	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr6:15462000-15464800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr6:15462000-15464800	Enhancers	Skeletal Muscle Male	skeletal muscle
48	chr6:15462000-15465800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr6:15462200-15465000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
50	chr6:15462400-15464600	Enhancers	Adipose Nuclei	Adipose

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