Variant report

Variant	rs11153778
Chromosome Location	chr6:119224416-119224417
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:119220702..119224795-chr6:119249246..119252141,5	K562	blood:

Extended variants
information (count: 41 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10456918	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1068588	0.82[EUR][1000 genomes]
rs11153777	0.90[EUR][1000 genomes]
rs11153780	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11153781	0.80[EUR][1000 genomes]
rs11153791	0.94[EUR][1000 genomes]
rs12190099	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12194458	0.84[AMR][1000 genomes]
rs12202077	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12204084	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs12204825	0.84[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs12207663	0.94[EUR][1000 genomes]
rs12211725	0.84[EUR][1000 genomes]
rs12213327	0.94[EUR][1000 genomes]
rs12213597	0.84[EUR][1000 genomes]
rs17506361	1.00[CEU][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs1775617	0.83[EUR][1000 genomes]
rs2295709	0.86[CEU][hapmap]
rs284919	0.82[CEU][hapmap]
rs590004	0.82[EUR][1000 genomes]
rs610960	0.82[EUR][1000 genomes]
rs639266	0.81[EUR][1000 genomes]
rs669978	0.82[EUR][1000 genomes]
rs67182660	0.97[EUR][1000 genomes]
rs67456868	0.84[AMR][1000 genomes]
rs6902942	0.94[EUR][1000 genomes]
rs7740819	0.84[EUR][1000 genomes]
rs7750373	0.82[EUR][1000 genomes]
rs7771525	0.85[EUR][1000 genomes]
rs7772912	1.00[CEU][hapmap];1.00[GIH][hapmap];0.94[TSI][hapmap];0.99[EUR][1000 genomes]
rs7775251	0.84[EUR][1000 genomes]
rs7775275	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs794614	0.86[CEU][hapmap]
rs813233	0.82[EUR][1000 genomes]
rs9374756	0.97[EUR][1000 genomes]
rs9374760	0.94[EUR][1000 genomes]
rs9374762	0.94[EUR][1000 genomes]
rs9374774	0.84[EUR][1000 genomes]
rs9387631	0.84[EUR][1000 genomes]
rs9401101	1.00[CEU][hapmap];1.00[GIH][hapmap];0.94[TSI][hapmap];0.94[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	nsv1020405	chr6:118786586-119241006	ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11153778	BRD7P3	cis	parietal	SCAN
rs11153778	MCM9	cis	cerebellum	SCAN
rs11153778	MCM9	cis	parietal	SCAN

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:119216600-119233800	Weak transcription	Lung	lung
2	chr6:119216600-119236600	Weak transcription	Gastric	stomach
3	chr6:119216600-119243800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:119216800-119230600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr6:119216800-119232400	Weak transcription	Colonic Mucosa	Colon
6	chr6:119216800-119232600	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr6:119216800-119233200	Weak transcription	Aorta	Aorta
8	chr6:119216800-119235800	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr6:119217000-119225400	Weak transcription	Stomach Smooth Muscle	stomach
10	chr6:119217000-119242200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr6:119217800-119224600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr6:119217800-119228400	Weak transcription	Rectal Smooth Muscle	rectum
13	chr6:119217800-119236200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr6:119218200-119229200	Weak transcription	NHLF	lung
15	chr6:119218600-119247000	Strong transcription	Fetal Thymus	thymus
16	chr6:119218800-119237200	Strong transcription	Primary hematopoietic stem cells	blood
17	chr6:119219200-119225400	Weak transcription	Small Intestine	intestine
18	chr6:119219200-119254000	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr6:119219200-119254400	Strong transcription	Placenta	Placenta
20	chr6:119219600-119253000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr6:119219600-119253800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
22	chr6:119220400-119226400	Strong transcription	Rectal Mucosa Donor 29	rectum
23	chr6:119220600-119225400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
24	chr6:119220600-119226200	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr6:119220600-119227000	Weak transcription	Spleen	Spleen
26	chr6:119220600-119233200	Weak transcription	Pancreas	Pancrea
27	chr6:119220600-119234400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr6:119220600-119236600	Weak transcription	Esophagus	oesophagus
29	chr6:119220800-119225400	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr6:119220800-119233000	Weak transcription	Fetal Intestine Small	intestine
31	chr6:119220800-119233600	Weak transcription	Right Ventricle	heart
32	chr6:119221000-119228000	Weak transcription	Hela-S3	cervix
33	chr6:119221200-119224800	Genic enhancers	NH-A	brain
34	chr6:119221200-119255800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr6:119221400-119224600	Weak transcription	Fetal Brain Male	brain
36	chr6:119221400-119246800	Strong transcription	HUES48 Cell Line	embryonic stem cell
37	chr6:119221600-119236600	Weak transcription	Psoas Muscle	Psoas
38	chr6:119221600-119237400	Strong transcription	HUES6 Cell Line	embryonic stem cell
39	chr6:119221600-119247800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
40	chr6:119221800-119224800	Strong transcription	Primary T cells fromperipheralblood	blood
41	chr6:119221800-119225200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr6:119221800-119227200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
43	chr6:119221800-119229600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr6:119221800-119233800	Weak transcription	Ovary	ovary
45	chr6:119221800-119234400	Strong transcription	K562	blood
46	chr6:119222000-119224600	Enhancers	Primary T cells from cord blood	blood
47	chr6:119222000-119225400	Weak transcription	Fetal Brain Female	brain
48	chr6:119222000-119243200	Strong transcription	HepG2	liver
49	chr6:119222000-119254000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr6:119222000-119254400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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