Variant report

Variant	rs11042540
Chromosome Location	chr11:9924436-9924437
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10743120	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs10770070	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs10770071	0.94[ASN][1000 genomes]
rs10770073	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs10840318	0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs10840319	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10840320	0.83[EUR][1000 genomes]
rs10840321	0.89[CEU][hapmap];0.86[EUR][1000 genomes]
rs10840322	0.85[EUR][1000 genomes]
rs11042527	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs11042531	0.85[EUR][1000 genomes]
rs11042532	0.85[EUR][1000 genomes]
rs11042533	0.91[ASN][1000 genomes]
rs11042541	0.85[EUR][1000 genomes]
rs12272416	0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs1398499	0.96[ASN][1000 genomes]
rs1512829	0.95[JPT][hapmap]
rs1828639	0.87[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs2403224	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs3907923	0.86[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs4409812	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs4910072	0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs4910074	0.86[CEU][hapmap];0.87[EUR][1000 genomes]
rs6483804	0.98[ASN][1000 genomes]
rs6483805	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs7108583	0.94[ASN][1000 genomes]
rs7119074	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7128275	0.90[ASN][1000 genomes]
rs7931062	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs7936793	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs7949582	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs9300099	0.85[EUR][1000 genomes]
rs9667075	0.94[JPT][hapmap]
rs9919621	0.95[CHB][hapmap];0.91[JPT][hapmap];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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	esv2762895	chr11:9849511-9954549	Flanking Active TSS Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv896988	chr11:9912052-10012511	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9878800-9952200	Weak transcription	Aorta	Aorta
2	chr11:9882400-9929600	Weak transcription	Primary T cells from cord blood	blood
3	chr11:9894400-9978600	Weak transcription	Left Ventricle	heart
4	chr11:9904000-9937000	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr11:9910000-9954600	Weak transcription	Pancreas	Pancrea
6	chr11:9913600-9928800	Weak transcription	Right Ventricle	heart
7	chr11:9913800-9927400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr11:9914200-9926800	Weak transcription	Brain Cingulate Gyrus	brain
9	chr11:9914400-9927600	Weak transcription	Brain Anterior Caudate	brain
10	chr11:9915000-9937200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr11:9915400-9926800	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr11:9915400-9927600	Weak transcription	Colon Smooth Muscle	Colon
13	chr11:9916600-9925200	Weak transcription	Lung	lung
14	chr11:9916600-9932600	Weak transcription	Fetal Intestine Small	intestine
15	chr11:9916800-9925000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr11:9916800-9944400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr11:9916800-9944400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr11:9917000-9927600	Weak transcription	Duodenum Mucosa	Duodenum
19	chr11:9917000-9937200	Weak transcription	Fetal Muscle Trunk	muscle
20	chr11:9917200-9925000	Weak transcription	Ovary	ovary
21	chr11:9917200-9927400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr11:9917400-9928000	Weak transcription	Brain Hippocampus Middle	brain
23	chr11:9917600-9927200	Weak transcription	Fetal Intestine Large	intestine
24	chr11:9917600-9927600	Weak transcription	Fetal Lung	lung
25	chr11:9917600-9928200	Weak transcription	Liver	Liver
26	chr11:9917600-9928200	Weak transcription	Fetal Heart	heart
27	chr11:9917600-9933200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr11:9917600-9934200	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr11:9917600-9951800	Weak transcription	Stomach Smooth Muscle	stomach
30	chr11:9917600-9952400	Weak transcription	Primary monocytes fromperipheralblood	blood
31	chr11:9917800-9926400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr11:9917800-9927400	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr11:9917800-9927400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr11:9917800-9927600	Weak transcription	Adipose Nuclei	Adipose
35	chr11:9917800-9933200	Weak transcription	Primary hematopoietic stem cells	blood
36	chr11:9917800-9952600	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr11:9920000-9933200	Weak transcription	Fetal Stomach	stomach
38	chr11:9920800-9925200	Weak transcription	HUVEC	blood vessel
39	chr11:9921400-9934400	Weak transcription	Monocytes-CD14+_RO01746	blood
40	chr11:9921600-9926400	Weak transcription	NH-A	brain
41	chr11:9921800-9926200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr11:9921800-9926400	Weak transcription	HSMM	muscle
43	chr11:9921800-9926600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr11:9922200-9926400	Weak transcription	NHLF	lung
45	chr11:9922600-9926200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr11:9922800-9924600	Enhancers	Osteobl	bone
47	chr11:9923200-9926400	Weak transcription	NHEK	skin
48	chr11:9923200-9926800	Weak transcription	Hela-S3	cervix
49	chr11:9923400-9924600	Enhancers	iPS-18 Cell Line	embryonic stem cell
50	chr11:9923400-9924600	Enhancers	iPS-20b Cell Line	embryonic stem cell

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