Variant report

Variant	rs11227654
Chromosome Location	chr11:66798211-66798212
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:66622744..66625685-chr11:66798078..66801194,3	MCF-7	breast:
2	chr11:66789062..66792605-chr11:66793092..66798254,6	K562	blood:
3	chr11:66786143..66803039-chr11:66815769..66832347,160	MCF-7	breast:
4	chr11:66789739..66792605-chr11:66795396..66798254,2	K562	blood:
5	chr11:66786222..66802522-chr11:66819452..66831805,83	MCF-7	breast:
6	chr11:66762844..66767090-chr11:66797831..66800946,4	MCF-7	breast:
7	chr11:66763043..66765170-chr11:66796976..66800333,4	MCF-7	breast:
8	chr11:66797798..66801949-chr11:66843586..66847456,4	MCF-7	breast:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RHOD-3	chr11:66797906-66800376	NONHSAT022371

No data

Variant related genes	Relation type
ENSG00000173227	Chromatin interaction
ENSG00000173621	Chromatin interaction
ENSG00000252709	Chromatin interaction
ENSG00000173156	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10160663	1.00[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];0.93[ASN][1000 genomes]
rs10896146	1.00[EUR][1000 genomes]
rs10896147	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10896148	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11227645	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11227647	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11227655	1.00[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];0.93[ASN][1000 genomes]
rs11227656	0.93[ASN][1000 genomes]
rs11227658	0.81[ASN][1000 genomes]
rs11227659	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11227660	0.86[ASN][1000 genomes]
rs11227662	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11227664	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11227666	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs12222286	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12270068	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12270183	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12273240	1.00[EUR][1000 genomes]
rs12274897	1.00[EUR][1000 genomes]
rs12275370	1.00[EUR][1000 genomes]
rs12276046	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12277065	1.00[EUR][1000 genomes]
rs12277720	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12279585	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12281292	1.00[EUR][1000 genomes]
rs12281335	1.00[EUR][1000 genomes]
rs12281512	1.00[EUR][1000 genomes]
rs12282433	1.00[EUR][1000 genomes]
rs12282440	1.00[EUR][1000 genomes]
rs12284422	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12284764	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12284808	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12284860	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12285661	1.00[EUR][1000 genomes]
rs12287658	1.00[EUR][1000 genomes]
rs12288309	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12288354	1.00[EUR][1000 genomes]
rs12290308	1.00[EUR][1000 genomes]
rs12290429	1.00[EUR][1000 genomes]
rs12290836	1.00[AMR][1000 genomes]
rs12290886	1.00[AMR][1000 genomes]
rs12290950	1.00[AMR][1000 genomes]
rs12292728	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12293275	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12788732	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56173916	1.00[EUR][1000 genomes]
rs56973649	1.00[EUR][1000 genomes]
rs57604888	1.00[EUR][1000 genomes]
rs57748654	1.00[EUR][1000 genomes]
rs57946225	1.00[EUR][1000 genomes]
rs60751057	1.00[EUR][1000 genomes]
rs7109580	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7123934	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7128943	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73493529	1.00[EUR][1000 genomes]
rs73493531	1.00[EUR][1000 genomes]
rs73501797	1.00[EUR][1000 genomes]
rs73501800	1.00[EUR][1000 genomes]
rs7924894	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7925264	1.00[EUR][1000 genomes]
rs7941982	1.00[EUR][1000 genomes]
rs7942885	1.00[EUR][1000 genomes]
rs7948985	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv555226	chr11:66579572-66845362	Active TSS Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
2	nsv428574	chr11:66619002-66804133	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv832194	chr11:66634462-66805980	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	33 gene(s)	inside rSNPs	diseases
4	nsv531397	chr11:66653381-67465721	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
5	esv1817552	chr11:66751014-66839985	Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
6	nsv532287	chr11:66784014-67023899	Weak transcription Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
7	nsv555239	chr11:66796380-66816507	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
8	nsv555240	chr11:66796380-66820728	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:66792600-66798400	Weak transcription	Pancreas	Pancrea
2	chr11:66792800-66799400	Weak transcription	Osteobl	bone
3	chr11:66793200-66798800	Weak transcription	A549	lung
4	chr11:66794000-66800800	Enhancers	Placenta	Placenta
5	chr11:66795200-66799800	Enhancers	HUES6 Cell Line	embryonic stem cell
6	chr11:66795400-66799400	Weak transcription	Brain Anterior Caudate	brain
7	chr11:66795600-66799200	Weak transcription	Esophagus	oesophagus
8	chr11:66795800-66798800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr11:66795800-66799400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr11:66795800-66800800	Weak transcription	Brain Angular Gyrus	brain
11	chr11:66796000-66798600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr11:66796000-66798800	Weak transcription	Gastric	stomach
13	chr11:66796000-66798800	Weak transcription	Spleen	Spleen
14	chr11:66796000-66799000	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr11:66796000-66799200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr11:66796000-66799400	Weak transcription	Stomach Mucosa	stomach
17	chr11:66796000-66799600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr11:66796200-66798800	Enhancers	GM12878-XiMat	blood
19	chr11:66796400-66798400	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr11:66796400-66808400	Weak transcription	Liver	Liver
21	chr11:66796600-66798400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr11:66796800-66798400	Enhancers	Muscle Satellite Cultured Cells	--
23	chr11:66797000-66798800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr11:66797000-66799200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr11:66797000-66799200	Weak transcription	HSMMtube	muscle
26	chr11:66797000-66799400	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr11:66797200-66802800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr11:66797400-66800200	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
29	chr11:66797400-66801800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
30	chr11:66797400-66802400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr11:66797600-66798400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr11:66797600-66800000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr11:66797800-66799800	Bivalent Enhancer	Primary B cells from peripheral blood	blood
34	chr11:66798000-66798600	Weak transcription	Hela-S3	cervix
35	chr11:66798000-66798600	Enhancers	NH-A	brain
36	chr11:66798200-66798400	Enhancers	iPS-20b Cell Line	embryonic stem cell
37	chr11:66798200-66799400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr11:66798200-66799600	Enhancers	HUES48 Cell Line	embryonic stem cell
39	chr11:66798200-66799800	Enhancers	ES-WA7 Cell Line	embryonic stem cell

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