Variant report

Variant	rs554576
Chromosome Location	chr11:34483894-34483895
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ELF5-1	chr11:34483603-34483902	ENSG00000245895

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10836244	0.87[CHB][hapmap];0.83[ASN][1000 genomes]
rs11032727	0.84[CEU][hapmap];0.87[CHB][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1408035	0.87[CHB][hapmap];0.83[ASN][1000 genomes]
rs2284365	0.87[ASN][1000 genomes]
rs2284367	0.83[ASN][1000 genomes]
rs2284368	0.87[CHB][hapmap];0.83[ASN][1000 genomes]
rs2284369	0.87[CHB][hapmap];0.83[ASN][1000 genomes]
rs2420388	0.87[CHB][hapmap];0.83[ASN][1000 genomes]
rs3781710	0.84[CEU][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4755372	0.83[ASN][1000 genomes]
rs4755373	0.84[ASN][1000 genomes]
rs4756148	0.83[ASN][1000 genomes]
rs4756154	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs566979	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6484722	0.83[ASN][1000 genomes]
rs7113917	0.83[ASN][1000 genomes]
rs769217	0.83[ASN][1000 genomes]
rs769218	0.87[CHB][hapmap];0.83[ASN][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	nsv897205	chr11:34248229-34507213	Enhancers Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv897207	chr11:34253683-34621004	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv897208	chr11:34257064-34562247	Strong transcription Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	nsv897209	chr11:34309519-34548906	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv832114	chr11:34424428-34607851	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:34461800-34485800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr11:34469800-34487400	Strong transcription	Hela-S3	cervix
3	chr11:34470200-34486600	Genic enhancers	Liver	Liver
4	chr11:34470400-34487400	Strong transcription	Sigmoid Colon	Sigmoid Colon
5	chr11:34470800-34488000	Strong transcription	Brain Hippocampus Middle	brain
6	chr11:34470800-34488000	Strong transcription	Fetal Intestine Large	intestine
7	chr11:34470800-34494200	Strong transcription	Brain Germinal Matrix	brain
8	chr11:34470800-34495600	Strong transcription	Stomach Smooth Muscle	stomach
9	chr11:34471000-34485400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr11:34471000-34487200	Strong transcription	Primary B cells from peripheral blood	blood
11	chr11:34471000-34487400	Strong transcription	Osteobl	bone
12	chr11:34471000-34494000	Strong transcription	Rectal Mucosa Donor 29	rectum
13	chr11:34471200-34487000	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr11:34471400-34486400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
15	chr11:34471400-34486600	Strong transcription	Primary T cells from cord blood	blood
16	chr11:34471400-34487000	Strong transcription	Thymus	Thymus
17	chr11:34471400-34487200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr11:34471400-34487200	Strong transcription	Fetal Muscle Trunk	muscle
19	chr11:34471400-34487400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr11:34471400-34487400	Strong transcription	Ovary	ovary
21	chr11:34471400-34487400	Strong transcription	Dnd41	blood
22	chr11:34471400-34487400	Strong transcription	HSMM	muscle
23	chr11:34471400-34487600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr11:34471400-34487800	Strong transcription	Colon Smooth Muscle	Colon
25	chr11:34471400-34488000	Strong transcription	Primary T helper cells fromperipheralblood	blood
26	chr11:34471400-34488000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr11:34471400-34494000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr11:34471400-34494600	Strong transcription	Placenta	Placenta
29	chr11:34471400-34495000	Strong transcription	Duodenum Smooth Muscle	Duodenum
30	chr11:34471400-34496400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr11:34471600-34484200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr11:34471600-34487200	Strong transcription	Fetal Muscle Leg	muscle
33	chr11:34471600-34487800	Strong transcription	HSMMtube	muscle
34	chr11:34471600-34488000	Strong transcription	Fetal Thymus	thymus
35	chr11:34471600-34495200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr11:34471600-34496800	Strong transcription	Duodenum Mucosa	Duodenum
37	chr11:34472600-34485200	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr11:34473200-34485000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr11:34473200-34487200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr11:34473600-34485200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr11:34473600-34488000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
42	chr11:34473800-34485000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
43	chr11:34473800-34486400	Strong transcription	Primary hematopoietic stem cells	blood
44	chr11:34474000-34485800	Strong transcription	Monocytes-CD14+_RO01746	blood
45	chr11:34474000-34487800	Strong transcription	Lung	lung
46	chr11:34474000-34496800	Strong transcription	Primary monocytes fromperipheralblood	blood
47	chr11:34474200-34485000	Strong transcription	Primary B cells from cord blood	blood
48	chr11:34474800-34487200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr11:34475600-34485200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
50	chr11:34475800-34485200	Weak transcription	HUVEC	blood vessel

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