Variant report

Variant	rs56339474
Chromosome Location	chr11:64142478-64142479
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:64136039..64138153-chr11:64141427..64143668,2	MCF-7	breast:
2	chr11:64122785..64130803-chr11:64136171..64143726,15	K562	blood:
3	chr11:64121829..64128526-chr11:64138236..64143726,11	K562	blood:
4	chr11:64140769..64142599-chr11:64166944..64169881,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168071	Chromatin interaction
ENSG00000162302	Chromatin interaction
ENSG00000221273	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10792430	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11231774	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11601872	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1198984	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12417275	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2096702	0.83[EUR][1000 genomes]
rs471584	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs559928	0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs641168	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7104729	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7104891	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7105178	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72924202	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72926038	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72926042	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72926046	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72926050	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1802079	chr11:63746066-64151373	Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	247 gene(s)	inside rSNPs	diseases
2	nsv897646	chr11:63754986-64150370	Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	245 gene(s)	inside rSNPs	diseases
3	nsv897662	chr11:63889749-64150370	Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	237 gene(s)	inside rSNPs	diseases
4	nsv897664	chr11:63919742-64150370	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	237 gene(s)	inside rSNPs	diseases
5	nsv897671	chr11:63964657-64150370	Active TSS Flanking Active TSS Genic enhancers Weak transcription Enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	179 gene(s)	inside rSNPs	diseases
6	nsv832186	chr11:63972260-64170059	Active TSS Genic enhancers Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	180 gene(s)	inside rSNPs	diseases
7	esv1802320	chr11:63987425-64154633	Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Weak transcription Strong transcription 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	178 gene(s)	inside rSNPs	diseases
8	nsv897679	chr11:63994692-64150370	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
9	nsv897682	chr11:63999529-64170500	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	164 gene(s)	inside rSNPs	diseases
10	nsv897685	chr11:64048912-64150370	Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	102 gene(s)	inside rSNPs	diseases
11	nsv897688	chr11:64107735-64150370	Weak transcription Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active 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 miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
12	nsv897689	chr11:64109118-64148420	Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS Enhancers Bivalent Enhancer 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 miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
13	nsv832187	chr11:64121969-64312300	Genic enhancers Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:64127400-64144400	Weak transcription	Psoas Muscle	Psoas
2	chr11:64127800-64146800	Weak transcription	Fetal Heart	heart
3	chr11:64134400-64150200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr11:64134400-64158400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr11:64135600-64143000	Weak transcription	NH-A	brain
6	chr11:64135600-64145800	Weak transcription	Rectal Smooth Muscle	rectum
7	chr11:64135600-64148800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr11:64136000-64145800	Weak transcription	HSMMtube	muscle
9	chr11:64138000-64142800	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr11:64138000-64145800	Weak transcription	Osteobl	bone
11	chr11:64138000-64146000	Weak transcription	HMEC	breast
12	chr11:64138200-64142600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr11:64138200-64146000	Weak transcription	Pancreas	Pancrea
14	chr11:64138200-64147200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr11:64138200-64151600	Weak transcription	Left Ventricle	heart
16	chr11:64138400-64143800	Weak transcription	NHLF	lung
17	chr11:64138400-64144000	Weak transcription	Aorta	Aorta
18	chr11:64138800-64146200	Weak transcription	Esophagus	oesophagus
19	chr11:64139000-64146000	Weak transcription	Right Ventricle	heart
20	chr11:64139200-64143000	Weak transcription	Small Intestine	intestine
21	chr11:64139600-64145800	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr11:64139600-64146200	Weak transcription	Gastric	stomach
23	chr11:64139600-64147400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr11:64139600-64148000	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr11:64139800-64145000	Weak transcription	Primary T cells from cord blood	blood
26	chr11:64139800-64145800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr11:64139800-64145800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr11:64139800-64147400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr11:64140000-64145400	Weak transcription	Fetal Brain Male	brain
30	chr11:64140000-64145800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr11:64140000-64145800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr11:64140000-64146000	Weak transcription	Stomach Smooth Muscle	stomach
33	chr11:64140000-64148000	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr11:64140000-64148600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr11:64140000-64152800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr11:64140200-64145800	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr11:64140400-64145800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr11:64140400-64145800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr11:64140400-64145800	Weak transcription	NHEK	skin
40	chr11:64140800-64146000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr11:64141000-64146400	Weak transcription	Spleen	Spleen
42	chr11:64141200-64145600	Weak transcription	Brain Hippocampus Middle	brain
43	chr11:64141200-64162000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr11:64141400-64143400	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr11:64141400-64146000	Weak transcription	Fetal Thymus	thymus
46	chr11:64142400-64142600	Enhancers	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links