Variant report

Variant	rs5753627
Chromosome Location	chr22:31859859-31859860
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr22:31853776..31856046-chr22:31858521..31860568,2	MCF-7	breast:
2	chr22:31838625..31840945-chr22:31858613..31860728,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000184708	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11089512	0.90[CHB][hapmap];1.00[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs11089514	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs11089515	0.82[AMR][1000 genomes]
rs12170867	0.90[AFR][1000 genomes]
rs12485048	1.00[CEU][hapmap];0.84[JPT][hapmap];0.92[EUR][1000 genomes]
rs17821102	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2024747	0.86[CHB][hapmap];0.90[AFR][1000 genomes]
rs3818134	0.82[CHB][hapmap]
rs4820979	0.86[CHB][hapmap]
rs4820980	0.86[CHB][hapmap]
rs5749278	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs5749280	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5749293	0.82[CHB][hapmap];0.90[AFR][1000 genomes]
rs5749301	0.86[AMR][1000 genomes]
rs5749303	0.88[CEU][hapmap];0.90[AFR][1000 genomes]
rs5753620	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs5753622	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs5753633	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5753635	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs5753647	0.86[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs5753650	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs5753657	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs5753667	0.90[CHB][hapmap]
rs5753677	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs5753681	0.82[CHB][hapmap];0.82[AMR][1000 genomes]
rs59285943	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs61675151	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs738656	0.82[CHB][hapmap]
rs9621269	1.00[CEU][hapmap];0.95[CHB][hapmap];0.84[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834176	chr22:31682426-31864701	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
2	nsv1063634	chr22:31797004-31921254	Strong transcription Weak transcription Enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
3	nsv459872	chr22:31833759-31977594	Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases
4	nsv588894	chr22:31833759-31977594	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases
5	esv1791934	chr22:31846234-31874194	Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' Enhancers Flanking Active TSS	TF binding region Chromatin interactive region	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:31797000-31884400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr22:31797000-31884400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr22:31797200-31860600	Strong transcription	Fetal Stomach	stomach
4	chr22:31815000-31868200	Strong transcription	Dnd41	blood
5	chr22:31815000-31883400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr22:31823600-31884600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr22:31832600-31867800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr22:31836200-31873600	Weak transcription	Stomach Mucosa	stomach
9	chr22:31845800-31860400	Strong transcription	Primary T cells from cord blood	blood
10	chr22:31846000-31865800	Strong transcription	Rectal Mucosa Donor 31	rectum
11	chr22:31846400-31872000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
12	chr22:31847600-31860400	Strong transcription	Fetal Intestine Large	intestine
13	chr22:31847600-31881800	Strong transcription	Monocytes-CD14+_RO01746	blood
14	chr22:31847800-31860400	Strong transcription	Primary B cells from cord blood	blood
15	chr22:31847800-31868200	Strong transcription	Primary monocytes fromperipheralblood	blood
16	chr22:31848000-31865600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr22:31848000-31867400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr22:31848000-31868000	Strong transcription	Primary T helper cells PMA-I stimulated	--
19	chr22:31848000-31868400	Strong transcription	HUES64 Cell Line	embryonic stem cell
20	chr22:31848200-31860200	Strong transcription	Adipose Nuclei	Adipose
21	chr22:31848200-31860200	Strong transcription	Brain Inferior Temporal Lobe	brain
22	chr22:31848200-31860200	Strong transcription	HUVEC	blood vessel
23	chr22:31848200-31860400	Strong transcription	Liver	Liver
24	chr22:31848200-31860400	Strong transcription	Duodenum Mucosa	Duodenum
25	chr22:31848200-31860400	Strong transcription	Rectal Mucosa Donor 29	rectum
26	chr22:31848200-31865800	Strong transcription	HUES6 Cell Line	embryonic stem cell
27	chr22:31848200-31867600	Strong transcription	Primary T cells fromperipheralblood	blood
28	chr22:31848200-31867800	Strong transcription	Primary B cells from peripheral blood	blood
29	chr22:31848200-31868200	Strong transcription	HUES48 Cell Line	embryonic stem cell
30	chr22:31848200-31868400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr22:31848400-31860000	Strong transcription	Brain Anterior Caudate	brain
32	chr22:31848400-31860200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr22:31848400-31860400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr22:31848400-31860400	Strong transcription	Primary T helper cells fromperipheralblood	blood
35	chr22:31848400-31860400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr22:31848400-31860400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr22:31848400-31860400	Strong transcription	Duodenum Smooth Muscle	Duodenum
38	chr22:31848600-31867400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
39	chr22:31848600-31868000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr22:31848600-31868400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr22:31848800-31883000	Weak transcription	Fetal Heart	heart
42	chr22:31849000-31860200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
43	chr22:31849000-31860400	Strong transcription	HSMM	muscle
44	chr22:31849000-31867600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr22:31849200-31860000	Strong transcription	Colon Smooth Muscle	Colon
46	chr22:31849200-31860400	Strong transcription	Osteobl	bone
47	chr22:31849400-31867600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr22:31849600-31860200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
49	chr22:31849800-31860400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
50	chr22:31850000-31860400	Strong transcription	HepG2	liver

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