Variant report

Variant	rs11826683
Chromosome Location	chr11:66249898-66249899
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RCOR1	chr11:66249313-66249942	IMR90	lung:	n/a	n/a
2	POLR2A	chr11:66249426-66249991	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr11:66247121..66250078-chr11:66454971..66457807,2	MCF-7	breast:
2	chr11:66137845..66139913-chr11:66247832..66250470,2	K562	blood:
3	chr11:66245983..66252638-chr11:66253022..66262739,17	MCF-7	breast:

Variant related genes	Relation type
ENSG00000255517	TF binding region
ENSG00000173898	Chromatin interaction
ENSG00000254986	Chromatin interaction
ENSG00000174669	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11821143	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11821162	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11822113	0.85[AFR][1000 genomes]
rs11827783	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11828370	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12099209	1.00[AMR][1000 genomes]
rs28441671	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28637515	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28640072	1.00[AMR][1000 genomes]
rs28672995	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28687888	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56021141	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56039471	1.00[AMR][1000 genomes]
rs57458798	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57814854	1.00[AMR][1000 genomes]
rs57925533	1.00[AMR][1000 genomes]
rs58024886	1.00[AMR][1000 genomes]
rs58149913	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61303821	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61610137	0.92[AFR][1000 genomes];1.00[AMR][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	esv3392427	chr11:65981489-66273695	Enhancers Active TSS Strong transcription Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	118 gene(s)	inside rSNPs	diseases
2	nsv897771	chr11:66011280-66362997	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	124 gene(s)	inside rSNPs	diseases
3	nsv897772	chr11:66018155-66254085	Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Active TSS Weak transcription Genic enhancers Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	118 gene(s)	inside rSNPs	diseases
4	nsv897780	chr11:66083129-66362997	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh 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	91 gene(s)	inside rSNPs	diseases
5	nsv832193	chr11:66120339-66278805	Strong transcription Bivalent/Poised TSS Weak transcription Active TSS Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
6	nsv468601	chr11:66234023-66296114	Strong transcription Flanking Active TSS Genic enhancers Enhancers Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
7	nsv555224	chr11:66234023-66296114	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
8	nsv522277	chr11:66234023-66493825	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	94 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:66248400-66254800	Weak transcription	Ovary	ovary
2	chr11:66248400-66254800	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr11:66248400-66255000	Weak transcription	Aorta	Aorta
4	chr11:66248400-66256800	Weak transcription	Left Ventricle	heart
5	chr11:66248600-66250000	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr11:66248600-66250000	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr11:66248600-66250000	Weak transcription	Primary T cells from cord blood	blood
8	chr11:66248600-66250000	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr11:66248600-66250200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr11:66248600-66250200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr11:66248600-66250200	Weak transcription	Primary neutrophils fromperipheralblood	blood
12	chr11:66248600-66250200	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr11:66248600-66250400	Weak transcription	Fetal Brain Female	brain
14	chr11:66248600-66250800	Enhancers	Fetal Muscle Leg	muscle
15	chr11:66248600-66251000	Weak transcription	Primary B cells from cord blood	blood
16	chr11:66248600-66251600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr11:66248600-66251800	Weak transcription	Brain Germinal Matrix	brain
18	chr11:66248600-66251800	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr11:66248600-66251800	Weak transcription	Duodenum Mucosa	Duodenum
20	chr11:66248600-66252200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr11:66248600-66252200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
22	chr11:66248600-66252400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr11:66248600-66252400	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr11:66248600-66252800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr11:66248600-66252800	Weak transcription	Esophagus	oesophagus
26	chr11:66248600-66252800	Weak transcription	Hela-S3	cervix
27	chr11:66248600-66253000	Weak transcription	Brain Hippocampus Middle	brain
28	chr11:66248600-66253000	Weak transcription	Colon Smooth Muscle	Colon
29	chr11:66248600-66253400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr11:66248600-66253400	Weak transcription	Osteobl	bone
31	chr11:66248600-66253800	Weak transcription	Fetal Intestine Large	intestine
32	chr11:66248600-66254200	Weak transcription	Brain Anterior Caudate	brain
33	chr11:66248600-66254200	Weak transcription	Rectal Smooth Muscle	rectum
34	chr11:66248600-66254400	Weak transcription	Brain Angular Gyrus	brain
35	chr11:66248600-66254400	Weak transcription	Brain Substantia Nigra	brain
36	chr11:66248600-66254400	Weak transcription	Right Ventricle	heart
37	chr11:66248600-66254600	Weak transcription	Primary hematopoietic stem cells	blood
38	chr11:66248600-66254800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr11:66248600-66255000	Weak transcription	A549	lung
40	chr11:66248600-66256800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
41	chr11:66248600-66259200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr11:66248600-66259200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr11:66248600-66260200	Weak transcription	HUVEC	blood vessel
44	chr11:66248600-66260200	Weak transcription	NH-A	brain
45	chr11:66248600-66260600	Weak transcription	Psoas Muscle	Psoas
46	chr11:66248600-66260800	Weak transcription	Right Atrium	heart
47	chr11:66248600-66261600	Weak transcription	Pancreatic Islets	Pancreatic Islet
48	chr11:66248600-66263200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr11:66248600-66263200	Weak transcription	Small Intestine	intestine
50	chr11:66248600-66277600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links