Variant report

Variant	rs2422249
Chromosome Location	chr11:36291260-36291261
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C11orf55-2	chr11:36290834-36293377	ENSG00000196559.3

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12793356	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12796405	0.95[CEU][hapmap];0.85[JPT][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2197601	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34700060	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34786383	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4756306	0.84[EUR][1000 genomes]
rs59312539	0.86[EUR][1000 genomes]
rs7128260	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7942584	1.00[CEU][hapmap];0.92[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];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv467791	chr11:36108497-36999385	Flanking Active TSS Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv554003	chr11:36108497-36999385	ZNF genes & repeats Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:36276800-36294400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr11:36278200-36292600	Weak transcription	Esophagus	oesophagus
3	chr11:36278200-36293200	Weak transcription	Fetal Lung	lung
4	chr11:36279200-36292000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr11:36279200-36294800	Weak transcription	HMEC	breast
6	chr11:36280400-36294800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr11:36280400-36299000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr11:36280800-36291400	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr11:36280800-36292000	Weak transcription	Brain Substantia Nigra	brain
10	chr11:36280800-36300200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr11:36281000-36292600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr11:36281400-36292200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr11:36281400-36293200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr11:36282000-36292000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr11:36282200-36302000	Weak transcription	NHEK	skin
16	chr11:36282800-36292200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr11:36283000-36298000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr11:36283200-36300000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr11:36286400-36293000	Weak transcription	Right Ventricle	heart
20	chr11:36287000-36294200	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr11:36287400-36291400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr11:36287600-36291800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr11:36287600-36295400	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr11:36287600-36304800	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr11:36287800-36292000	Weak transcription	Brain Anterior Caudate	brain
26	chr11:36287800-36292000	Weak transcription	Brain Germinal Matrix	brain
27	chr11:36287800-36292200	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr11:36287800-36292400	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr11:36287800-36292800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
30	chr11:36287800-36293400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr11:36288000-36293200	Weak transcription	Osteobl	bone
32	chr11:36288000-36310200	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr11:36288200-36292000	Weak transcription	Thymus	Thymus
34	chr11:36288400-36295200	Weak transcription	NHLF	lung
35	chr11:36288400-36304600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr11:36288600-36293000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr11:36288800-36291400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
38	chr11:36288800-36292000	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr11:36288800-36292200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr11:36288800-36292200	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr11:36289000-36291400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr11:36289000-36292200	Weak transcription	HSMM	muscle
43	chr11:36289200-36292000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
44	chr11:36289200-36293000	Weak transcription	HSMMtube	muscle
45	chr11:36289200-36299800	Weak transcription	HepG2	liver
46	chr11:36289200-36300000	Weak transcription	H9 Cell Line	embryonic stem cell
47	chr11:36289400-36292200	Weak transcription	Primary hematopoietic stem cells	blood
48	chr11:36289400-36292600	Weak transcription	Placenta	Placenta
49	chr11:36289400-36292600	Weak transcription	Left Ventricle	heart
50	chr11:36289400-36293600	Weak transcription	Fetal Kidney	kidney

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