Variant report

Variant	rs9634842
Chromosome Location	chr13:52006241-52006242
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:52000192..52002988-chr13:52004718..52007508,2	K562	blood:
2	chr13:51996684..51999154-chr13:52005130..52007771,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000102786	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1028727	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17075688	0.84[EUR][1000 genomes]
rs17194948	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17195020	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2026526	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2277443	0.86[JPT][hapmap]
rs2408363	0.86[CHB][hapmap];0.82[JPT][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4628860	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs56017742	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73197809	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73197821	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73197824	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73197826	0.81[EUR][1000 genomes]
rs7321642	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs7328715	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7335122	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7335144	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7337450	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7989674	0.82[EUR][1000 genomes]
rs7989850	0.87[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7998084	0.87[CEU][hapmap]
rs8001311	0.84[EUR][1000 genomes]
rs9316541	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9316545	0.88[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9316546	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9526757	0.88[CEU][hapmap];0.90[EUR][1000 genomes]
rs9526758	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9526759	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9526761	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9526764	0.87[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9535640	0.80[EUR][1000 genomes]
rs9535646	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9535652	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9535655	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9535660	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9535661	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9535662	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9535663	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9535665	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9535670	0.87[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9535671	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9535672	0.84[EUR][1000 genomes]
rs9535677	0.84[EUR][1000 genomes]
rs9535678	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9535679	0.84[EUR][1000 genomes]
rs9535680	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9535682	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9535683	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9535687	0.80[EUR][1000 genomes]
rs9535688	0.80[EUR][1000 genomes]
rs9535689	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9535694	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9535696	0.87[CEU][hapmap]
rs9535697	0.87[CEU][hapmap];0.85[CHB][hapmap];0.80[EUR][1000 genomes]
rs9535699	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9563046	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9568600	0.87[CEU][hapmap];0.84[EUR][1000 genomes]
rs9568603	0.87[CEU][hapmap];0.84[EUR][1000 genomes]
rs9568608	0.81[EUR][1000 genomes]
rs9568612	0.88[CEU][hapmap];0.85[CHB][hapmap];0.81[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9634842	INTS6	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:51945800-52016600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr13:51949400-52025000	Weak transcription	Fetal Muscle Leg	muscle
3	chr13:51950000-52025200	Weak transcription	Fetal Muscle Trunk	muscle
4	chr13:51963200-52024800	Weak transcription	Fetal Intestine Large	intestine
5	chr13:51971800-52025000	Weak transcription	Fetal Stomach	stomach
6	chr13:51972000-52016000	Weak transcription	Pancreas	Pancrea
7	chr13:51984400-52024800	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr13:51988800-52024400	Weak transcription	Rectal Smooth Muscle	rectum
9	chr13:51990000-52016600	Weak transcription	Fetal Intestine Small	intestine
10	chr13:51992400-52025400	Weak transcription	Esophagus	oesophagus
11	chr13:51995400-52023400	Weak transcription	Fetal Kidney	kidney
12	chr13:51995400-52024600	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr13:51995600-52019000	Weak transcription	Gastric	stomach
14	chr13:51995600-52023400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr13:51995600-52025000	Weak transcription	Right Ventricle	heart
16	chr13:51995600-52025600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr13:51995800-52008000	Weak transcription	Hela-S3	cervix
18	chr13:51997000-52007200	Weak transcription	Psoas Muscle	Psoas
19	chr13:51997000-52025200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr13:51997400-52024400	Weak transcription	Thymus	Thymus
21	chr13:51997600-52006600	Weak transcription	Fetal Heart	heart
22	chr13:51997600-52023200	Weak transcription	Primary hematopoietic stem cells	blood
23	chr13:51997600-52023600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr13:51999400-52007200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr13:51999800-52006400	Weak transcription	Brain Angular Gyrus	brain
26	chr13:51999800-52011800	Weak transcription	Left Ventricle	heart
27	chr13:51999800-52022400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
28	chr13:51999800-52023000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr13:52000000-52007600	Strong transcription	Primary neutrophils fromperipheralblood	blood
30	chr13:52000400-52006800	Weak transcription	Primary T cells from cord blood	blood
31	chr13:52000600-52009800	Weak transcription	HSMMtube	muscle
32	chr13:52000600-52025200	Weak transcription	Small Intestine	intestine
33	chr13:52001000-52010000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr13:52001200-52022800	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr13:52001400-52024600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr13:52001600-52006400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr13:52001600-52007600	Strong transcription	GM12878-XiMat	blood
38	chr13:52001600-52009200	Weak transcription	Stomach Smooth Muscle	stomach
39	chr13:52001600-52024400	Weak transcription	Brain Cingulate Gyrus	brain
40	chr13:52001800-52009400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr13:52001800-52011400	Weak transcription	Stomach Mucosa	stomach
42	chr13:52001800-52023000	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr13:52002000-52009800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
44	chr13:52002200-52006600	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr13:52002200-52024000	Weak transcription	Brain Anterior Caudate	brain
46	chr13:52002400-52010400	Weak transcription	Primary B cells from cord blood	blood
47	chr13:52003600-52009400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
48	chr13:52003600-52009400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr13:52003600-52024200	Weak transcription	NHLF	lung
50	chr13:52003800-52023400	Weak transcription	H1 Cell Line	embryonic stem cell

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