Variant report

Variant	rs2064099
Chromosome Location	chr6:15476181-15476182
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:15475822..15477498-chr6:15521346..15524316,2	K562	blood:
2	chr6:15244530..15246061-chr6:15474801..15476749,2	K562	blood:
3	chr6:15469193..15474455-chr6:15475135..15479397,6	K562	blood:
4	chr6:15474184..15476635-chr6:15488076..15490844,2	K562	blood:
5	chr6:15473996..15477838-chr6:15479843..15483274,5	K562	blood:
6	chr6:15467280..15470049-chr6:15474791..15476337,2	MCF-7	breast:
7	chr6:15474412..15476958-chr6:15485865..15488051,2	MCF-7	breast:
8	chr6:15474274..15478303-chr6:15480821..15484291,4	K562	blood:

No data

Variant related genes	Relation type
ENSG00000271888	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs16876554	0.85[CEU][hapmap];0.86[GIH][hapmap];0.92[MEX][hapmap];0.84[TSI][hapmap];0.83[EUR][1000 genomes]
rs16876555	0.85[CEU][hapmap];0.86[GIH][hapmap];0.92[MEX][hapmap];0.84[TSI][hapmap];0.83[EUR][1000 genomes]
rs2076058	0.85[CEU][hapmap]
rs2237110	0.85[CEU][hapmap];0.86[GIH][hapmap];0.82[MEX][hapmap];0.84[TSI][hapmap];0.83[EUR][1000 genomes]
rs2299048	0.83[ASW][hapmap]
rs2743861	0.82[MEX][hapmap]
rs3778651	0.82[MEX][hapmap];0.84[TSI][hapmap]
rs3819397	0.95[ASN][1000 genomes]
rs6903151	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6925211	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7756497	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9296975	0.84[TSI][hapmap]
rs9464792	0.90[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[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:124 , 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	chr6:15444600-15477400	Weak transcription	Hela-S3	cervix
3	chr6:15446600-15479800	Weak transcription	Gastric	stomach
4	chr6:15448200-15479800	Weak transcription	Pancreas	Pancrea
5	chr6:15453000-15481000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr6:15457000-15480800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr6:15458400-15484200	Weak transcription	Small Intestine	intestine
8	chr6:15460800-15480000	Weak transcription	Stomach Mucosa	stomach
9	chr6:15461600-15491000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr6:15463000-15479800	Weak transcription	Fetal Brain Male	brain
11	chr6:15463200-15476600	Weak transcription	Rectal Smooth Muscle	rectum
12	chr6:15463800-15476400	Weak transcription	Ovary	ovary
13	chr6:15463800-15479800	Weak transcription	Brain Germinal Matrix	brain
14	chr6:15464800-15479800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr6:15465600-15480000	Weak transcription	Fetal Brain Female	brain
16	chr6:15468400-15478200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr6:15468600-15476400	Strong transcription	H9 Cell Line	embryonic stem cell
18	chr6:15468600-15476600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr6:15468600-15476800	Strong transcription	Primary T cells from cord blood	blood
20	chr6:15468800-15476200	Strong transcription	Primary T helper cells PMA-I stimulated	--
21	chr6:15468800-15476200	Strong transcription	Primary T helper cells fromperipheralblood	blood
22	chr6:15468800-15476200	Strong transcription	Dnd41	blood
23	chr6:15468800-15476800	Strong transcription	Primary T cells fromperipheralblood	blood
24	chr6:15468800-15477600	Strong transcription	HepG2	liver
25	chr6:15468800-15478400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr6:15469400-15476400	Weak transcription	Brain Cingulate Gyrus	brain
27	chr6:15469400-15480400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr6:15469600-15476400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr6:15469600-15481200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr6:15470000-15478800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr6:15470000-15480000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr6:15470200-15476400	Weak transcription	Fetal Muscle Trunk	muscle
33	chr6:15470200-15481600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
34	chr6:15471000-15476400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr6:15471000-15488200	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr6:15471000-15502000	Weak transcription	A549	lung
37	chr6:15471200-15476400	Weak transcription	Lung	lung
38	chr6:15471200-15476400	Weak transcription	Stomach Smooth Muscle	stomach
39	chr6:15471400-15481000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
40	chr6:15471400-15488200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr6:15471800-15480000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr6:15472000-15484200	Weak transcription	Liver	Liver
43	chr6:15472600-15478000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr6:15472800-15477200	Enhancers	Skeletal Muscle Female	skeletal muscle
45	chr6:15473000-15476200	Weak transcription	Brain Angular Gyrus	brain
46	chr6:15473000-15476200	Weak transcription	Brain Hippocampus Middle	brain
47	chr6:15473000-15476400	Weak transcription	Fetal Lung	lung
48	chr6:15473200-15476800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
49	chr6:15473200-15476800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr6:15473200-15478400	Strong transcription	Primary hematopoietic stem cells short term culture	blood

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