Variant report

Variant	rs1892928
Chromosome Location	chr11:66794108-66794109
allele	C/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:7)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:66610368..66612581-chr11:66793604..66796937,3	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	chr11:66723147..66725998-chr11:66792267..66795189,3	MCF-7	breast:
5	chr11:66762811..66772502-chr11:66787021..66797000,34	MCF-7	breast:
6	chr11:66786222..66802522-chr11:66819452..66831805,83	MCF-7	breast:
7	chr11:66793222..66795910-chr11:67054347..67057344,2	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RHOD-3	chr11:66794093-66797649	NONHSAT022371

No data

Variant related genes	Relation type
ENSG00000173599	Chromatin interaction
ENSG00000252709	Chromatin interaction
ENSG00000172932	Chromatin interaction
ENSG00000173156	Chromatin interaction
ENSG00000173653	Chromatin interaction
ENSG00000173227	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10896145	0.91[EUR][1000 genomes]
rs11227643	0.95[CEU][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11227649	0.89[EUR][1000 genomes]
rs1253434	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1253435	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1253439	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1253440	0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2513659	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4307728	0.95[CEU][hapmap];0.93[EUR][1000 genomes]
rs56016006	0.83[EUR][1000 genomes]
rs896436	0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:66791400-66794400	Weak transcription	Gastric	stomach
2	chr11:66791600-66795000	Weak transcription	Esophagus	oesophagus
3	chr11:66792200-66795400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr11:66792200-66797400	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr11:66792400-66795000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr11:66792600-66795200	Weak transcription	Brain Angular Gyrus	brain
7	chr11:66792600-66795200	Weak transcription	Spleen	Spleen
8	chr11:66792600-66796600	Weak transcription	HSMMtube	muscle
9	chr11:66792600-66798400	Weak transcription	Pancreas	Pancrea
10	chr11:66792800-66796800	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr11:66792800-66799400	Weak transcription	Osteobl	bone
12	chr11:66793000-66794400	Weak transcription	Liver	Liver
13	chr11:66793000-66795000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr11:66793000-66796400	Weak transcription	NH-A	brain
15	chr11:66793200-66794200	Weak transcription	Hela-S3	cervix
16	chr11:66793200-66794400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr11:66793200-66794400	Weak transcription	HMEC	breast
18	chr11:66793200-66796600	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr11:66793200-66797200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr11:66793200-66798800	Weak transcription	A549	lung
21	chr11:66794000-66800800	Enhancers	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links