Variant report

Variant	rs10768063
Chromosome Location	chr11:34369938-34369939
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:34365763..34368722-chr11:34368922..34370946,2	MCF-7	breast:
2	chr11:34368701..34370901-chr11:34379752..34381357,2	K562	blood:
3	chr11:34368537..34371450-chr11:34371767..34375088,3	K562	blood:

Extended variants
information (count: 68 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10742313	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10742314	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10768059	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10768060	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10768061	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10768062	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10768064	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10768065	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.97[LWK][hapmap];0.91[MEX][hapmap];0.98[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10768066	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.97[LWK][hapmap];0.96[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10768067	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10768068	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10768069	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10836186	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs10836187	1.00[ASN][1000 genomes]
rs10836189	0.96[ASN][1000 genomes]
rs10836190	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10836191	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10836194	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10836195	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10836196	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10836197	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11032617	0.83[CHB][hapmap]
rs11032618	0.82[CHB][hapmap];0.80[CHD][hapmap];0.82[MEX][hapmap]
rs11032621	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11032624	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.82[MEX][hapmap];0.94[MKK][hapmap];0.93[TSI][hapmap];0.85[YRI][hapmap];0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11032625	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11032627	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11032628	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11032631	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11032632	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11032634	1.00[CEU][hapmap];0.81[JPT][hapmap];0.83[MEX][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11032635	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11032642	0.81[EUR][1000 genomes]
rs12296013	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1810506	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1810507	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1883736	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1925368	1.00[CEU][hapmap];0.81[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1925371	0.88[EUR][1000 genomes]
rs1925372	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1925374	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1977109	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2001176	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2092485	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2145794	1.00[CHB][hapmap];0.90[CHD][hapmap];0.91[JPT][hapmap];0.96[ASN][1000 genomes]
rs3740795	0.85[CEU][hapmap];0.81[JPT][hapmap];0.83[MEX][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3740796	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3817990	1.00[CEU][hapmap];0.81[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3981191	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3981192	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4140544	1.00[CEU][hapmap];0.94[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];0.81[JPT][hapmap];0.81[LWK][hapmap];0.83[MEX][hapmap];0.88[MKK][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4993520	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6484710	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6484711	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7110380	1.00[CEU][hapmap];0.81[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7124239	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs742634	1.00[CEU][hapmap];0.81[JPT][hapmap];0.83[MEX][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7927718	0.81[EUR][1000 genomes]
rs7929828	1.00[CHB][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs7944461	1.00[CHB][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs910088	1.00[CEU][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757435	chr11:34220504-34370236	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv2759816	chr11:34220504-34370236	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv897205	chr11:34248229-34507213	Enhancers Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv897207	chr11:34253683-34621004	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
5	nsv897208	chr11:34257064-34562247	Strong transcription Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
6	nsv897209	chr11:34309519-34548906	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
7	nsv897210	chr11:34349427-34381075	Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10768063	SLITRK6	trans	brain	seeQTL

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:34361800-34370800	Weak transcription	GM12878-XiMat	blood
2	chr11:34362600-34370200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr11:34363000-34372400	Enhancers	Fetal Muscle Leg	muscle
4	chr11:34364200-34376600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr11:34364400-34371000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr11:34365400-34372200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr11:34366000-34371800	Enhancers	Right Atrium	heart
8	chr11:34366200-34370800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr11:34366200-34371200	Enhancers	Fetal Stomach	stomach
10	chr11:34366400-34374000	Enhancers	Psoas Muscle	Psoas
11	chr11:34367000-34371800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr11:34367000-34376200	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr11:34367200-34375200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr11:34367400-34370400	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr11:34367400-34376400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr11:34367600-34370000	Weak transcription	Duodenum Mucosa	Duodenum
17	chr11:34367600-34372800	Enhancers	HepG2	liver
18	chr11:34367800-34370000	Weak transcription	Fetal Thymus	thymus
19	chr11:34367800-34370000	Weak transcription	Right Ventricle	heart
20	chr11:34367800-34376400	Weak transcription	Pancreas	Pancrea
21	chr11:34368000-34370000	Weak transcription	Colonic Mucosa	Colon
22	chr11:34368000-34370000	Weak transcription	Lung	lung
23	chr11:34368200-34370400	Weak transcription	Brain Substantia Nigra	brain
24	chr11:34368200-34370400	Weak transcription	NHDF-Ad	bronchial
25	chr11:34368200-34370600	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr11:34368200-34373000	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr11:34368200-34375000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr11:34368200-34376600	Weak transcription	Brain Angular Gyrus	brain
29	chr11:34368400-34370000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr11:34368400-34371000	Enhancers	Fetal Heart	heart
31	chr11:34368400-34372200	Enhancers	Skeletal Muscle Male	skeletal muscle
32	chr11:34368400-34375800	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr11:34368400-34376200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr11:34368400-34377800	Weak transcription	Gastric	stomach
35	chr11:34368600-34370000	Weak transcription	Placenta	Placenta
36	chr11:34368600-34370400	Weak transcription	Fetal Lung	lung
37	chr11:34368600-34371200	Weak transcription	NH-A	brain
38	chr11:34368600-34371400	Enhancers	Stomach Smooth Muscle	stomach
39	chr11:34368600-34371400	Enhancers	A549	lung
40	chr11:34368600-34372000	Enhancers	HSMM	muscle
41	chr11:34368600-34373200	Enhancers	HSMMtube	muscle
42	chr11:34368600-34374200	Weak transcription	Stomach Mucosa	stomach
43	chr11:34368600-34376400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr11:34368800-34370200	Weak transcription	NHLF	lung
45	chr11:34368800-34370400	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr11:34368800-34370600	Weak transcription	Osteobl	bone
47	chr11:34368800-34371200	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr11:34368800-34371400	Weak transcription	Hela-S3	cervix
49	chr11:34368800-34374800	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr11:34368800-34376200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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