Variant report

Variant	rs11806870
Chromosome Location	chr1:174952226-174952227
allele	C/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:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:174851374..174852003-chr1:174952166..174952708,2	MCF-7	breast:
2	chr1:174738363..174739795-chr1:174951924..174953020,9	K562	blood:
3	chr1:174949199..174950710-chr1:174951113..174952678,2	K562	blood:
4	chr1:174852208..174853122-chr1:174952181..174952840,2	MCF-7	breast:
5	chr1:174940091..174948288-chr1:174948961..174955449,13	K562	blood:
6	chr1:174950773..174953880-chr1:174954270..174959481,6	MCF-7	breast:
7	chr1:174852179..174852893-chr1:174952083..174953015,4	MCF-7	breast:
8	chr1:174948621..174950308-chr1:174951034..174953522,2	K562	blood:
9	chr1:174934696..174935248-chr1:174952072..174953029,2	MCF-7	breast:
10	chr1:174951979..174954205-chr1:174957061..174959132,2	K562	blood:
11	chr1:174738784..174740555-chr1:174951842..174953064,10	MCF-7	breast:
12	chr1:174934157..174936495-chr1:174950544..174953349,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000152061	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10489331	0.83[ASW][hapmap]
rs10489334	0.84[AMR][1000 genomes]
rs10912847	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs10912851	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs10912852	0.83[YRI][hapmap]
rs10912858	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs10912862	1.00[ASW][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs10912864	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs10912866	1.00[ASW][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes]
rs12057161	1.00[EUR][1000 genomes]
rs12062145	0.83[ASW][hapmap];1.00[MEX][hapmap]
rs12066421	1.00[EUR][1000 genomes]
rs12068625	1.00[EUR][1000 genomes]
rs12070082	1.00[EUR][1000 genomes]
rs12072529	1.00[ASW][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.86[YRI][hapmap];0.86[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs12075140	0.84[AMR][1000 genomes]
rs12075193	1.00[EUR][1000 genomes]
rs12084999	1.00[EUR][1000 genomes]
rs12089375	0.84[AMR][1000 genomes]
rs12095683	1.00[TSI][hapmap]
rs12096717	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs1231828	1.00[EUR][1000 genomes]
rs1329280	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs13376513	0.80[AMR][1000 genomes]
rs1612104	1.00[EUR][1000 genomes]
rs1618234	1.00[EUR][1000 genomes]
rs1653631	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs1653633	1.00[EUR][1000 genomes]
rs1653637	1.00[EUR][1000 genomes]
rs16847457	1.00[EUR][1000 genomes]
rs16847652	0.96[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs16847670	0.80[AMR][1000 genomes]
rs16847701	0.88[ASW][hapmap];1.00[MEX][hapmap]
rs173000	1.00[EUR][1000 genomes]
rs1754356	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs189141	1.00[EUR][1000 genomes]
rs1894679	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs2116515	1.00[EUR][1000 genomes]
rs2981891	1.00[EUR][1000 genomes]
rs2981895	1.00[EUR][1000 genomes]
rs2987871	1.00[EUR][1000 genomes]
rs2987878	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs332790	1.00[EUR][1000 genomes]
rs333434	1.00[EUR][1000 genomes]
rs4650677	1.00[ASW][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs4651250	1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs58238388	1.00[EUR][1000 genomes]
rs59073370	1.00[EUR][1000 genomes]
rs60283543	1.00[EUR][1000 genomes]
rs6696432	1.00[EUR][1000 genomes]
rs74128516	1.00[EUR][1000 genomes]
rs74128526	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs74128530	0.95[AFR][1000 genomes];0.89[AMR][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	esv2755184	chr1:174388343-174970343	Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	54 gene(s)	inside rSNPs	diseases
2	nsv1001000	chr1:174944208-174978853	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:174910800-174957000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr1:174924200-174967800	Weak transcription	Brain Germinal Matrix	brain
3	chr1:174924400-174958200	Weak transcription	Fetal Brain Male	brain
4	chr1:174933000-174953600	Weak transcription	Fetal Heart	heart
5	chr1:174935000-174959000	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr1:174935000-174964000	Strong transcription	HUES48 Cell Line	embryonic stem cell
7	chr1:174935000-174967000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr1:174935200-174959000	Weak transcription	Stomach Smooth Muscle	stomach
9	chr1:174935200-174959600	Weak transcription	Esophagus	oesophagus
10	chr1:174935400-174958400	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr1:174935800-174959600	Weak transcription	Fetal Kidney	kidney
12	chr1:174936000-174958600	Weak transcription	Brain Substantia Nigra	brain
13	chr1:174937000-174963600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
14	chr1:174937200-174955000	Strong transcription	HUES64 Cell Line	embryonic stem cell
15	chr1:174937400-174963600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
16	chr1:174938000-174963600	Strong transcription	H1 Cell Line	embryonic stem cell
17	chr1:174938600-174959000	Weak transcription	Small Intestine	intestine
18	chr1:174938600-174959400	Weak transcription	Psoas Muscle	Psoas
19	chr1:174938600-174965200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr1:174938800-174959000	Weak transcription	Thymus	Thymus
21	chr1:174939400-174958800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr1:174940000-174967600	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr1:174940600-174962000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr1:174940600-174963600	Strong transcription	HUES6 Cell Line	embryonic stem cell
25	chr1:174941000-174968000	Weak transcription	Gastric	stomach
26	chr1:174941200-174959600	Weak transcription	Colonic Mucosa	Colon
27	chr1:174941200-174959600	Weak transcription	Stomach Mucosa	stomach
28	chr1:174941400-174959400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
29	chr1:174941800-174952600	Strong transcription	Primary T cells fromperipheralblood	blood
30	chr1:174942800-174957000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr1:174942800-174959000	Strong transcription	Monocytes-CD14+_RO01746	blood
32	chr1:174942800-174959600	Weak transcription	Right Ventricle	heart
33	chr1:174943400-174952800	Strong transcription	Rectal Mucosa Donor 29	rectum
34	chr1:174943400-174954800	Strong transcription	Primary monocytes fromperipheralblood	blood
35	chr1:174943400-174955000	Strong transcription	Placenta	Placenta
36	chr1:174943800-174952400	Strong transcription	H9 Cell Line	embryonic stem cell
37	chr1:174943800-174953600	Strong transcription	Duodenum Mucosa	Duodenum
38	chr1:174943800-174958600	Weak transcription	Colon Smooth Muscle	Colon
39	chr1:174944200-174959200	Weak transcription	Pancreatic Islets	Pancreatic Islet
40	chr1:174944400-174959000	Weak transcription	Ovary	ovary
41	chr1:174944400-174967800	Weak transcription	Aorta	Aorta
42	chr1:174944800-174958800	Weak transcription	Rectal Smooth Muscle	rectum
43	chr1:174944800-174967800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr1:174944800-174968000	Weak transcription	Spleen	Spleen
45	chr1:174945000-174959000	Weak transcription	Pancreas	Pancrea
46	chr1:174945800-174959000	Weak transcription	Brain Hippocampus Middle	brain
47	chr1:174945800-174959000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr1:174946000-174959000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr1:174946000-174959000	Weak transcription	NHLF	lung
50	chr1:174946000-174968000	Weak transcription	Lung	lung

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