Variant report

Variant	rs56387230
Chromosome Location	chr22:22060375-22060376
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr22:22056000..22058204-chr22:22060369..22062797,2	MCF-7	breast:
2	chr22:22053845..22056535-chr22:22060286..22062132,2	MCF-7	breast:
3	chr22:22059649..22068854-chr22:22288884..22299619,22	K562	blood:

Variant related genes	Relation type
ENSG00000224086	Chromatin interaction
ENSG00000100034	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10009	0.98[ASN][1000 genomes]
rs1045681	0.98[ASN][1000 genomes]
rs108816	0.93[ASN][1000 genomes]
rs11703445	0.98[ASN][1000 genomes]
rs11705530	0.98[ASN][1000 genomes]
rs11912412	0.98[ASN][1000 genomes]
rs12170039	0.98[ASN][1000 genomes]
rs1811070	0.98[ASN][1000 genomes]
rs2034570	0.98[ASN][1000 genomes]
rs2034572	0.98[ASN][1000 genomes]
rs2070504	0.98[ASN][1000 genomes]
rs2278118	0.98[ASN][1000 genomes]
rs2840341	0.98[ASN][1000 genomes]
rs3209602	0.98[ASN][1000 genomes]
rs3747095	0.98[ASN][1000 genomes]
rs3788329	0.93[ASN][1000 genomes]
rs4821168	0.98[ASN][1000 genomes]
rs56108061	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62235097	0.98[ASN][1000 genomes]
rs62235098	0.98[ASN][1000 genomes]
rs62235099	0.98[ASN][1000 genomes]
rs62235101	0.98[ASN][1000 genomes]
rs7285388	0.98[ASN][1000 genomes]
rs7286619	0.98[ASN][1000 genomes]
rs7291614	0.98[ASN][1000 genomes]
rs73149915	0.85[AMR][1000 genomes]
rs741617	0.98[ASN][1000 genomes]
rs8142802	0.98[ASN][1000 genomes]
rs861812	0.95[ASN][1000 genomes]
rs861813	0.95[ASN][1000 genomes]
rs915724	0.86[AMR][1000 genomes];0.81[EUR][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	nsv914458	chr22:21747678-22070489	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	387 gene(s)	inside rSNPs	diseases
2	esv1823866	chr22:21928916-22131125	Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Weak transcription Genic enhancers Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	374 gene(s)	inside rSNPs	diseases
3	nsv948603	chr22:21928916-22601814	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer 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	422 gene(s)	inside rSNPs	diseases
4	nsv948902	chr22:21928916-22657900	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	426 gene(s)	inside rSNPs	diseases
5	nsv1063962	chr22:21939722-22934593	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	477 gene(s)	inside rSNPs	diseases
6	nsv1058617	chr22:21939922-22934454	Weak transcription Bivalent Enhancer Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS 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	477 gene(s)	inside rSNPs	diseases
7	nsv529694	chr22:21957411-22905068	Enhancers Genic enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS 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	474 gene(s)	inside rSNPs	diseases
8	nsv531797	chr22:21977700-22959729	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	476 gene(s)	inside rSNPs	diseases
9	nsv914468	chr22:21982892-22070489	Flanking Bivalent TSS/Enh Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	365 gene(s)	inside rSNPs	diseases
10	nsv1066403	chr22:22010822-22352262	Genic enhancers Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
11	nsv510804	chr22:22024531-22132764	Weak transcription Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
12	nsv1066964	chr22:22055123-22228745	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
13	nsv544604	chr22:22055123-22228745	Strong transcription Genic enhancers Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:22032200-22065200	Strong transcription	Fetal Thymus	thymus
2	chr22:22033400-22065800	Strong transcription	Thymus	Thymus
3	chr22:22034600-22065400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr22:22044400-22067400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr22:22045800-22066400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr22:22047400-22060400	Strong transcription	Primary B cells from peripheral blood	blood
7	chr22:22050800-22064000	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr22:22051400-22067400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr22:22051800-22064000	Weak transcription	NHEK	skin
10	chr22:22052000-22070800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr22:22052200-22063400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr22:22052200-22067600	Weak transcription	GM12878-XiMat	blood
13	chr22:22052400-22067400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr22:22052400-22067400	Weak transcription	Fetal Intestine Large	intestine
15	chr22:22053200-22067400	Weak transcription	Colon Smooth Muscle	Colon
16	chr22:22053400-22066000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr22:22053400-22067200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr22:22053400-22067200	Weak transcription	Rectal Smooth Muscle	rectum
19	chr22:22053400-22068200	Weak transcription	Psoas Muscle	Psoas
20	chr22:22053600-22061200	Strong transcription	Fetal Stomach	stomach
21	chr22:22053600-22062000	Weak transcription	HSMM	muscle
22	chr22:22053600-22062000	Weak transcription	Osteobl	bone
23	chr22:22053600-22064000	Weak transcription	Esophagus	oesophagus
24	chr22:22053600-22065600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr22:22053600-22067200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr22:22053600-22067400	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr22:22053600-22067600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
28	chr22:22053600-22088800	Weak transcription	Aorta	Aorta
29	chr22:22053800-22062000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr22:22053800-22062000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr22:22053800-22065800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr22:22053800-22067400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr22:22053800-22067600	Weak transcription	Primary T helper cells PMA-I stimulated	--
34	chr22:22054200-22067200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr22:22054200-22067200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr22:22054200-22067400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr22:22054200-22067600	Weak transcription	Primary monocytes fromperipheralblood	blood
38	chr22:22054200-22067800	Weak transcription	Placenta Amnion	Placenta Amnion
39	chr22:22054600-22066400	Weak transcription	Primary T helper cells fromperipheralblood	blood
40	chr22:22055200-22066600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
41	chr22:22055800-22061200	Weak transcription	Monocytes-CD14+_RO01746	blood
42	chr22:22055800-22067400	Weak transcription	NH-A	brain
43	chr22:22056000-22067200	Weak transcription	Rectal Mucosa Donor 31	rectum
44	chr22:22056000-22080800	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr22:22056200-22061600	Weak transcription	Left Ventricle	heart
46	chr22:22056200-22064000	Weak transcription	Fetal Kidney	kidney
47	chr22:22056200-22067800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
48	chr22:22056200-22068600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr22:22056200-22069000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr22:22056400-22063400	Weak transcription	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links