Variant report

Variant	rs7554
Chromosome Location	chr11:105969101-105969102
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GRIA4-2	chr11:105967470-105969426	NONHSAT023973

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

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1048683	0.90[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs10791780	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10895900	0.85[CHB][hapmap]
rs10895901	0.81[CHB][hapmap];0.92[JPT][hapmap];0.88[YRI][hapmap];0.90[AFR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10895902	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10895904	0.90[CHB][hapmap]
rs11226907	1.00[CEU][hapmap]
rs11226909	1.00[CEU][hapmap]
rs11226911	0.90[AFR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11226914	1.00[CEU][hapmap]
rs11226915	0.90[CHB][hapmap]
rs11226920	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11226922	0.80[CHB][hapmap]
rs12365489	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17105049	0.85[CHB][hapmap];0.84[CHD][hapmap];0.90[JPT][hapmap];0.93[LWK][hapmap];0.84[YRI][hapmap]
rs1893174	0.90[CHB][hapmap]
rs1939798	0.90[CHB][hapmap]
rs1939799	0.90[CHB][hapmap]
rs2155340	0.85[CHB][hapmap]
rs2186731	0.85[CHB][hapmap]
rs2277278	0.86[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs3740869	0.80[CHB][hapmap];0.90[JPT][hapmap];0.88[YRI][hapmap]
rs4237618	0.86[CHB][hapmap]
rs4440991	0.90[CHB][hapmap]
rs4474407	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs4754141	0.90[CHB][hapmap]
rs60606604	0.86[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs7108636	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs754562	0.80[CHB][hapmap]
rs766717	0.80[CHB][hapmap]
rs9651674	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048381	chr11:105945117-106561574	Weak transcription Enhancers Active TSS Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:105949000-105973400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr11:105949200-105969800	Weak transcription	Lung	lung
3	chr11:105949200-105971600	Weak transcription	Esophagus	oesophagus
4	chr11:105950400-105971200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr11:105950600-105969400	Strong transcription	HUES64 Cell Line	embryonic stem cell
6	chr11:105952000-105969400	Weak transcription	Colonic Mucosa	Colon
7	chr11:105953400-105970600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr11:105953600-105969600	Weak transcription	Gastric	stomach
9	chr11:105956000-105970000	Strong transcription	HUES48 Cell Line	embryonic stem cell
10	chr11:105957200-105971000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr11:105957200-105976600	Weak transcription	Pancreas	Pancrea
12	chr11:105957200-105976800	Weak transcription	Aorta	Aorta
13	chr11:105958600-105970000	Weak transcription	Fetal Intestine Small	intestine
14	chr11:105958600-105971800	Weak transcription	Hela-S3	cervix
15	chr11:105959200-105970000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
16	chr11:105959200-105970400	Strong transcription	Dnd41	blood
17	chr11:105959400-105970200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
18	chr11:105959400-105970200	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr11:105959800-105970200	Weak transcription	Small Intestine	intestine
20	chr11:105959800-105970400	Weak transcription	Fetal Brain Male	brain
21	chr11:105961000-105969400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr11:105961000-105969600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr11:105961000-105970800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr11:105961000-105970800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr11:105961200-105969200	Strong transcription	Fetal Thymus	thymus
26	chr11:105961200-105970200	Strong transcription	HUES6 Cell Line	embryonic stem cell
27	chr11:105961200-105970400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr11:105961400-105969200	Strong transcription	Fetal Lung	lung
29	chr11:105961400-105970400	Strong transcription	Primary monocytes fromperipheralblood	blood
30	chr11:105961400-105970400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
31	chr11:105961400-105971600	Strong transcription	HSMM	muscle
32	chr11:105961600-105970400	Strong transcription	Adipose Nuclei	Adipose
33	chr11:105961600-105970400	Strong transcription	Liver	Liver
34	chr11:105961800-105969200	Strong transcription	Primary neutrophils fromperipheralblood	blood
35	chr11:105961800-105969600	Strong transcription	Primary T cells fromperipheralblood	blood
36	chr11:105961800-105970000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr11:105961800-105970200	Strong transcription	Primary B cells from peripheral blood	blood
38	chr11:105961800-105970400	Strong transcription	Skeletal Muscle Female	skeletal muscle
39	chr11:105961800-105970600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr11:105962000-105970400	Strong transcription	Duodenum Smooth Muscle	Duodenum
41	chr11:105962200-105970400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
42	chr11:105962200-105970400	Strong transcription	Primary B cells from cord blood	blood
43	chr11:105962400-105970000	Strong transcription	HUVEC	blood vessel
44	chr11:105962400-105970600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr11:105962600-105969400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr11:105962600-105970000	Strong transcription	Muscle Satellite Cultured Cells	--
47	chr11:105962800-105969200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr11:105962800-105969200	Strong transcription	NH-A	brain
49	chr11:105963000-105969600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr11:105963000-105972400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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