Variant report

Variant	rs2098840
Chromosome Location	chr11:10677339-10677340
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SP1	chr11:10675687-10677428	HCT-116	colon:	n/a	n/a
2	RCOR1	chr11:10676392-10678421	IMR90	lung:	n/a	n/a
3	SP1	chr11:10675697-10677347	HCT-116	colon:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:10584920..10587068-chr11:10674559..10677361,2	K562	blood:
2	chr11:10665821..10668759-chr11:10676865..10679050,3	K562	blood:
3	chr11:10675148..10677906-chr11:10678421..10681418,4	MCF-7	breast:
4	chr11:10534042..10535923-chr11:10675097..10677538,2	MCF-7	breast:
5	chr11:10674925..10678334-chr11:10679453..10682484,4	MCF-7	breast:

No data

Variant related genes	Relation type
MRVI1	TF binding region

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10770129	0.84[ASN][1000 genomes]
rs10770130	0.97[ASN][1000 genomes]
rs10770132	0.86[ASN][1000 genomes]
rs10770133	0.85[ASN][1000 genomes]
rs10840456	0.84[ASN][1000 genomes]
rs10840458	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10840459	0.90[ASN][1000 genomes]
rs10840460	0.95[ASN][1000 genomes]
rs10840461	0.95[ASN][1000 genomes]
rs10840462	0.95[ASN][1000 genomes]
rs10840463	0.95[ASN][1000 genomes]
rs10840464	0.95[ASN][1000 genomes]
rs10840465	0.95[ASN][1000 genomes]
rs10840466	0.95[ASN][1000 genomes]
rs10840467	0.94[ASN][1000 genomes]
rs10840468	0.86[ASN][1000 genomes]
rs11042911	0.89[ASN][1000 genomes]
rs11042913	0.95[ASN][1000 genomes]
rs12363422	0.86[ASN][1000 genomes]
rs12420672	0.86[ASN][1000 genomes]
rs12420675	0.86[ASN][1000 genomes]
rs1390572	0.95[ASN][1000 genomes]
rs1390573	0.88[ASN][1000 genomes]
rs1425149	0.95[ASN][1000 genomes]
rs1425150	0.95[ASN][1000 genomes]
rs1425151	0.95[ASN][1000 genomes]
rs1544862	0.95[ASN][1000 genomes]
rs1544863	0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs16908157	0.86[ASN][1000 genomes]
rs16908159	0.86[ASN][1000 genomes]
rs16908162	0.86[ASN][1000 genomes]
rs1845832	0.95[ASN][1000 genomes]
rs1874444	0.95[ASN][1000 genomes]
rs1895712	0.95[ASN][1000 genomes]
rs34554801	0.90[ASN][1000 genomes]
rs35040034	0.95[ASN][1000 genomes]
rs35165550	0.86[ASN][1000 genomes]
rs4243916	0.88[ASN][1000 genomes]
rs4909946	0.88[ASN][1000 genomes]
rs4910166	0.86[ASN][1000 genomes]
rs722274	0.95[ASN][1000 genomes]
rs745336	0.88[ASN][1000 genomes]
rs750540	0.86[ASN][1000 genomes]
rs7933525	0.95[ASN][1000 genomes]
rs7938027	0.88[ASN][1000 genomes]
rs7939662	0.86[ASN][1000 genomes]
rs7939686	0.86[ASN][1000 genomes]
rs881870	0.83[ASN][1000 genomes]
rs903825	0.86[ASN][1000 genomes]
rs903826	0.86[ASN][1000 genomes]
rs903827	0.86[ASN][1000 genomes]
rs903828	0.86[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	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
2	nsv832063	chr11:10618485-10785281	ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10646000-10679000	Weak transcription	Fetal Lung	lung
2	chr11:10646200-10679200	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr11:10650400-10678600	Weak transcription	Right Ventricle	heart
4	chr11:10664200-10678800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr11:10672000-10679200	Enhancers	Duodenum Smooth Muscle	Duodenum
6	chr11:10673000-10682200	Enhancers	Placenta	Placenta
7	chr11:10673200-10677800	Enhancers	Colon Smooth Muscle	Colon
8	chr11:10673400-10679200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr11:10673400-10682800	Enhancers	Ovary	ovary
10	chr11:10673600-10678400	Weak transcription	Left Ventricle	heart
11	chr11:10673600-10678400	Weak transcription	Right Atrium	heart
12	chr11:10673800-10678800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr11:10673800-10679200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr11:10673800-10681400	Weak transcription	Pancreas	Pancrea
15	chr11:10674000-10677400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr11:10674000-10681400	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr11:10674200-10681800	Enhancers	Primary monocytes fromperipheralblood	blood
18	chr11:10674400-10678000	Enhancers	Primary neutrophils fromperipheralblood	blood
19	chr11:10674400-10681400	Enhancers	Fetal Muscle Leg	muscle
20	chr11:10674400-10681800	Enhancers	Skeletal Muscle Female	skeletal muscle
21	chr11:10674600-10678400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr11:10674600-10678400	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr11:10674600-10689600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr11:10674800-10678800	Enhancers	Rectal Smooth Muscle	rectum
25	chr11:10675000-10678800	Enhancers	K562	blood
26	chr11:10675200-10677600	Enhancers	Primary B cells from cord blood	blood
27	chr11:10675200-10677800	Enhancers	Stomach Smooth Muscle	stomach
28	chr11:10675200-10679000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr11:10675400-10678600	Enhancers	GM12878-XiMat	blood
30	chr11:10675400-10678800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr11:10675600-10677400	Genic enhancers	Aorta	Aorta
32	chr11:10675600-10677400	Weak transcription	Fetal Thymus	thymus
33	chr11:10675600-10677400	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr11:10675600-10677600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr11:10675600-10677800	Enhancers	Adipose Nuclei	Adipose
36	chr11:10675600-10678800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr11:10675800-10677400	Weak transcription	Fetal Muscle Trunk	muscle
38	chr11:10675800-10678400	Weak transcription	Esophagus	oesophagus
39	chr11:10675800-10678800	Weak transcription	Stomach Mucosa	stomach
40	chr11:10675800-10680000	Weak transcription	Brain Angular Gyrus	brain
41	chr11:10676000-10677600	Enhancers	NHEK	skin
42	chr11:10676000-10677800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr11:10676000-10678200	Enhancers	Breast Myoepithelial Primary Cells	Breast
44	chr11:10676000-10678400	Weak transcription	Brain Anterior Caudate	brain
45	chr11:10676000-10679200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr11:10676000-10683200	Enhancers	NHDF-Ad	bronchial
47	chr11:10676200-10677400	Enhancers	A549	lung
48	chr11:10676200-10678000	Enhancers	Osteobl	bone
49	chr11:10676200-10678800	Weak transcription	Brain Cingulate Gyrus	brain
50	chr11:10676400-10677600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links