Variant report

Variant	rs10769977
Chromosome Location	chr11:8982849-8982850
allele	A/G
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:8706753..8709894-chr11:8978976..8982993,5	K562	blood:
2	chr11:8981281..8983336-chr11:9009757..9012558,2	K562	blood:
3	chr11:8981190..8983280-chr11:8983909..8986637,3	MCF-7	breast:
4	chr11:8977155..8979531-chr11:8982227..8985372,3	MCF-7	breast:
5	chr11:8659357..8661041-chr11:8981138..8982951,2	K562	blood:
6	chr11:8980645..8982852-chr11:8983601..8986780,3	K562	blood:
7	chr11:8980645..8983033-chr11:8983601..8987670,5	K562	blood:
8	chr11:8981631..8983476-chr11:9112206..9113841,2	MCF-7	breast:
9	chr11:8976172..8977812-chr11:8982786..8984481,2	K562	blood:
10	chr11:8979873..8982866-chr11:8983729..8987375,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000175356	Chromatin interaction
ENSG00000212607	Chromatin interaction
ENSG00000175348	Chromatin interaction
ENSG00000254860	Chromatin interaction

Extended variants
information (count: 85 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10219366	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1025438	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs10734639	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10743094	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10769974	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10769976	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10840150	0.84[AMR][1000 genomes]
rs10840151	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10840153	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10840154	0.92[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10840155	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10840156	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042128	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11042129	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11042131	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12798311	0.80[EUR][1000 genomes]
rs1347016	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2016844	0.91[CEU][hapmap];0.81[EUR][1000 genomes]
rs2043218	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2056903	0.91[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2116510	1.00[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2116511	1.00[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2163625	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2246878	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2247038	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2316523	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2316541	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2568034	0.92[CEU][hapmap]
rs2568042	0.91[CEU][hapmap]
rs2568069	1.00[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2568074	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2568075	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2568077	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2568079	0.91[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2568081	0.96[CEU][hapmap];0.84[CHB][hapmap];0.88[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2568086	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2568087	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2568088	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2653556	0.87[CEU][hapmap]
rs2653565	0.91[CEU][hapmap]
rs2653590	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2653594	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2653597	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2653601	0.91[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2653604	1.00[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2653611	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2742486	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2742487	1.00[CEU][hapmap];0.92[CHB][hapmap];0.88[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2742488	1.00[CEU][hapmap];0.92[CHB][hapmap];0.88[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2742489	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2742491	1.00[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2742493	0.96[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2742494	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2742495	0.92[CEU][hapmap];0.92[CHB][hapmap];0.88[JPT][hapmap];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2742496	0.91[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2742497	0.91[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2742504	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2742505	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2742512	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2742513	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2742514	1.00[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2742519	1.00[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2742521	0.92[CEU][hapmap]
rs3751063	0.91[CEU][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3751065	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3751066	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3751068	1.00[CEU][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3763911	0.96[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs3763912	0.96[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4909951	0.91[CEU][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4910181	0.80[AMR][1000 genomes]
rs7106152	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72852790	0.85[ASN][1000 genomes]
rs72853712	0.85[ASN][1000 genomes]
rs7932377	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7942026	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7951226	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs909464	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9300096	0.91[CEU][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs982273	0.88[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758256	chr11:8784813-9009573	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	esv2759803	chr11:8784813-9009573	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv435923	chr11:8839325-9000602	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv832062	chr11:8849295-9009472	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	esv3413845	chr11:8887279-9285127	Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10769977	C11orf17	cis	Lymphoblastoid	GTEx
rs10769977	C11orf17	cis	multi-tissue	Pritchard

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:8944600-8985000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr11:8954400-8984400	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr11:8963200-8985000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr11:8965800-8984800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr11:8966400-8984000	Weak transcription	Fetal Brain Male	brain
6	chr11:8968200-8985000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr11:8970600-8984400	Weak transcription	Right Ventricle	heart
8	chr11:8970600-8985000	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr11:8970800-8984400	Weak transcription	A549	lung
10	chr11:8971200-8984400	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr11:8972800-8984200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr11:8973600-8985000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr11:8974800-8984000	Weak transcription	HepG2	liver
14	chr11:8974800-8984400	Weak transcription	Primary hematopoietic stem cells	blood
15	chr11:8976200-8984000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr11:8977400-8984800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr11:8977600-8984200	Weak transcription	Brain Germinal Matrix	brain
18	chr11:8977600-8985000	Weak transcription	Esophagus	oesophagus
19	chr11:8977600-8985000	Weak transcription	Fetal Muscle Trunk	muscle
20	chr11:8977800-8984000	Weak transcription	Dnd41	blood
21	chr11:8977800-8984200	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr11:8977800-8984200	Weak transcription	Fetal Brain Female	brain
23	chr11:8977800-8984400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr11:8977800-8984400	Weak transcription	Fetal Thymus	thymus
25	chr11:8978000-8983000	Weak transcription	Brain Cingulate Gyrus	brain
26	chr11:8978000-8983400	Weak transcription	Primary T cells from cord blood	blood
27	chr11:8978000-8983400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr11:8978000-8984200	Weak transcription	Thymus	Thymus
29	chr11:8978000-8984400	Weak transcription	Spleen	Spleen
30	chr11:8978000-8985000	Weak transcription	Gastric	stomach
31	chr11:8978000-8985000	Weak transcription	Lung	lung
32	chr11:8978200-8983000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
33	chr11:8978200-8984200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr11:8978600-8984000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
35	chr11:8978600-8984400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr11:8978800-8983400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
37	chr11:8978800-8984000	Weak transcription	Primary T cells fromperipheralblood	blood
38	chr11:8978800-8984600	Weak transcription	Placenta	Placenta
39	chr11:8979000-8984200	Weak transcription	Primary neutrophils fromperipheralblood	blood
40	chr11:8979200-8984200	Weak transcription	Primary B cells from cord blood	blood
41	chr11:8979200-8984400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr11:8979400-8984200	Weak transcription	Primary monocytes fromperipheralblood	blood
43	chr11:8979400-8984400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr11:8981000-8983000	Weak transcription	Sigmoid Colon	Sigmoid Colon
45	chr11:8981000-8984000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr11:8981000-8984200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr11:8981000-8984200	Weak transcription	Psoas Muscle	Psoas
48	chr11:8981000-8984200	Weak transcription	Monocytes-CD14+_RO01746	blood
49	chr11:8981000-8984400	Weak transcription	Pancreas	Pancrea
50	chr11:8981000-8984800	Weak transcription	Right Atrium	heart

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