Variant report

Variant	rs10840342
Chromosome Location	chr11:10042029-10042030
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10160515	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10770080	0.81[YRI][hapmap];0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10770085	0.90[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs10840331	0.80[AMR][1000 genomes]
rs10840332	0.82[YRI][hapmap];0.80[AMR][1000 genomes]
rs10840335	0.80[AMR][1000 genomes]
rs10840339	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11042581	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11042582	0.80[YRI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11042583	0.83[ASN][1000 genomes]
rs11042598	0.87[AMR][1000 genomes]
rs12295754	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2403228	0.80[AMR][1000 genomes]
rs2403259	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2403264	0.82[YRI][hapmap];0.81[AFR][1000 genomes]
rs2403268	0.97[AFR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4309158	0.81[YRI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4909918	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4910089	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6483883	0.82[YRI][hapmap];0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7120865	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7126376	0.82[YRI][hapmap];0.82[AFR][1000 genomes]
rs7128698	0.82[YRI][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7129239	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7942420	0.81[AMR][1000 genomes]
rs7947588	0.88[AMR][1000 genomes]
rs7950140	0.81[YRI][hapmap];0.80[AFR][1000 genomes];0.89[AMR][1000 genomes]

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	nsv933855	chr11:9645441-10130519	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv896989	chr11:9951968-10059623	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
3	nsv553475	chr11:10019879-10059623	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv553476	chr11:10024311-10117435	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9981400-10051600	Weak transcription	Aorta	Aorta
2	chr11:9985800-10049000	Weak transcription	Left Ventricle	heart
3	chr11:9991200-10060000	Weak transcription	Colon Smooth Muscle	Colon
4	chr11:10001400-10066200	Weak transcription	Pancreas	Pancrea
5	chr11:10004200-10048600	Weak transcription	Brain Angular Gyrus	brain
6	chr11:10010600-10051200	Weak transcription	Ovary	ovary
7	chr11:10012600-10049000	Weak transcription	Fetal Kidney	kidney
8	chr11:10024200-10047800	Weak transcription	Osteobl	bone
9	chr11:10024800-10054000	Weak transcription	Hela-S3	cervix
10	chr11:10030400-10042600	Weak transcription	Fetal Lung	lung
11	chr11:10030600-10047000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr11:10030600-10051400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr11:10030600-10054000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr11:10030600-10065800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr11:10032800-10049200	Weak transcription	Fetal Muscle Trunk	muscle
16	chr11:10033200-10042400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr11:10034000-10047000	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr11:10034400-10047800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr11:10034600-10043200	Weak transcription	Fetal Intestine Large	intestine
20	chr11:10035200-10043200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr11:10035200-10065800	Weak transcription	Stomach Smooth Muscle	stomach
22	chr11:10035400-10051200	Weak transcription	Psoas Muscle	Psoas
23	chr11:10035600-10044400	Weak transcription	NHDF-Ad	bronchial
24	chr11:10035800-10052800	Weak transcription	Spleen	Spleen
25	chr11:10036000-10049000	Weak transcription	Placenta	Placenta
26	chr11:10036000-10055600	Weak transcription	NHEK	skin
27	chr11:10036200-10047800	Weak transcription	NHLF	lung
28	chr11:10036200-10062800	Weak transcription	Adipose Nuclei	Adipose
29	chr11:10037400-10043000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr11:10037400-10043200	Weak transcription	Liver	Liver
31	chr11:10037600-10048000	Weak transcription	Fetal Stomach	stomach
32	chr11:10037600-10049400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr11:10037800-10043000	Weak transcription	A549	lung
34	chr11:10038000-10047800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr11:10038200-10047600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr11:10039400-10047400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr11:10040200-10043200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr11:10040400-10065800	Weak transcription	HSMM	muscle
39	chr11:10040600-10043800	Enhancers	HUES48 Cell Line	embryonic stem cell
40	chr11:10040600-10049400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr11:10041400-10042200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr11:10041400-10043400	Enhancers	iPS-20b Cell Line	embryonic stem cell
43	chr11:10041400-10043800	Enhancers	Primary hematopoietic stem cells	blood
44	chr11:10041400-10043800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr11:10041600-10042200	Enhancers	Primary T killer memory cells from peripheral blood	blood
46	chr11:10041600-10042200	Enhancers	Duodenum Mucosa	Duodenum
47	chr11:10041600-10042200	ZNF genes & repeats	Fetal Intestine Small	intestine
48	chr11:10041600-10042200	Enhancers	Fetal Muscle Leg	muscle
49	chr11:10041600-10042400	Enhancers	Primary monocytes fromperipheralblood	blood
50	chr11:10041600-10042400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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