Variant report

Variant	rs241711
Chromosome Location	chr22:33382956-33382957
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr22:33382445..33385028-chr22:33386160..33388841,3	MCF-7	breast:
2	chr22:33379303..33380936-chr22:33382275..33384664,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs133924	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs133925	0.81[ASN][1000 genomes]
rs133926	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs133927	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs133929	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs133931	1.00[CHB][hapmap];0.94[JPT][hapmap];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs133934	1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs133936	0.89[ASN][1000 genomes]
rs133937	1.00[CHB][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs133938	1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs133941	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs133966	1.00[CHB][hapmap]
rs133967	0.88[CHB][hapmap]
rs133970	0.90[CHB][hapmap]
rs133974	0.81[CHB][hapmap]
rs1365837	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs137552	0.88[CHB][hapmap];0.93[JPT][hapmap];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs241707	0.86[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs241708	0.90[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs241709	0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs241712	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs241714	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs241715	1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs241717	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs241721	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs241722	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs241725	0.81[CHB][hapmap];0.83[JPT][hapmap]
rs241727	0.81[CHB][hapmap];0.84[ASN][1000 genomes]
rs241729	0.82[ASN][1000 genomes]
rs241731	0.81[CHB][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs241732	0.88[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs241756	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs241758	0.82[JPT][hapmap]
rs241759	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs241760	0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs241766	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs241767	0.90[CHB][hapmap];0.94[JPT][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4518061	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs470004	0.89[CHB][hapmap];0.87[JPT][hapmap];0.89[ASN][1000 genomes]
rs5754366	0.85[ASN][1000 genomes]
rs5754377	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs5998684	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs739143	1.00[CHB][hapmap]
rs9609676	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[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	nsv531568	chr22:33336868-33480272	Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv531587	chr22:33346710-33809338	Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:33354600-33387400	Weak transcription	Fetal Brain Female	brain
2	chr22:33380400-33383600	Enhancers	Placenta Amnion	Placenta Amnion
3	chr22:33380400-33384000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr22:33380800-33383200	Enhancers	Fetal Heart	heart
5	chr22:33380800-33389200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr22:33381000-33383600	Enhancers	Fetal Lung	lung
7	chr22:33381000-33383800	Enhancers	Fetal Stomach	stomach
8	chr22:33381000-33385400	Enhancers	NHEK	skin
9	chr22:33381200-33383800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr22:33381400-33385200	Enhancers	Fetal Muscle Leg	muscle
11	chr22:33381400-33385400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr22:33381600-33383400	Enhancers	Duodenum Smooth Muscle	Duodenum
13	chr22:33381600-33383600	Enhancers	Fetal Intestine Small	intestine
14	chr22:33381600-33383600	Enhancers	Fetal Muscle Trunk	muscle
15	chr22:33381600-33383800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr22:33381600-33384000	Enhancers	Placenta	Placenta
17	chr22:33381800-33383200	Enhancers	ES-I3 Cell Line	embryonic stem cell
18	chr22:33381800-33383400	Enhancers	Fetal Kidney	kidney
19	chr22:33381800-33383600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr22:33381800-33383600	Enhancers	Brain Hippocampus Middle	brain
21	chr22:33381800-33383600	Enhancers	Fetal Brain Male	brain
22	chr22:33381800-33383600	Enhancers	Hela-S3	cervix
23	chr22:33381800-33383800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr22:33381800-33383800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr22:33381800-33383800	Enhancers	HUES64 Cell Line	embryonic stem cell
26	chr22:33381800-33383800	Enhancers	iPS-18 Cell Line	embryonic stem cell
27	chr22:33381800-33383800	Enhancers	Brain Germinal Matrix	brain
28	chr22:33381800-33383800	Enhancers	Brain Inferior Temporal Lobe	brain
29	chr22:33381800-33384000	Enhancers	HUES6 Cell Line	embryonic stem cell
30	chr22:33381800-33385000	Enhancers	Breast Myoepithelial Primary Cells	Breast
31	chr22:33381800-33386600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr22:33381800-33389200	Enhancers	HMEC	breast
33	chr22:33382000-33383400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
34	chr22:33382000-33383600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
35	chr22:33382000-33383600	Enhancers	HSMM	muscle
36	chr22:33382000-33383800	Enhancers	H1 Cell Line	embryonic stem cell
37	chr22:33382000-33383800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr22:33382000-33383800	Enhancers	HSMMtube	muscle
39	chr22:33382000-33384000	Enhancers	iPS-15b Cell Line	embryonic stem cell
40	chr22:33382000-33390200	Weak transcription	Right Atrium	heart
41	chr22:33382200-33383200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr22:33382200-33383600	Enhancers	Cortex derived primary cultured neurospheres	brain
43	chr22:33382200-33383800	Enhancers	iPS-20b Cell Line	embryonic stem cell
44	chr22:33382200-33384000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr22:33382200-33384000	Enhancers	HUES48 Cell Line	embryonic stem cell
46	chr22:33382400-33383200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr22:33382400-33383400	Weak transcription	Left Ventricle	heart
48	chr22:33382400-33383600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr22:33382400-33383600	Enhancers	Brain Anterior Caudate	brain
50	chr22:33382400-33383800	Enhancers	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links