Variant report

Variant	rs2559526
Chromosome Location	chr10:22896485-22896486
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:22878706..22881547-chr10:22895040..22897400,2	MCF-7	breast:
2	chr10:22894422..22896822-chr10:23343724..23345259,2	K562	blood:
3	chr10:22894884..22897373-chr10:22931733..22933332,2	K562	blood:

Variant related genes	Relation type
ENSG00000150867	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10764341	0.81[CEU][hapmap]
rs11013054	1.00[CHB][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs1171496	0.83[CEU][hapmap];0.82[CHB][hapmap]
rs1171505	0.85[CEU][hapmap];0.90[CHB][hapmap]
rs1409397	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1409398	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1750750	0.96[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1750754	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1750755	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1750756	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1750757	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1750758	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1778303	0.96[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1778304	0.96[CEU][hapmap];0.92[CHB][hapmap];0.88[JPT][hapmap];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1778316	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1778331	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1778351	0.88[JPT][hapmap]
rs1778353	0.96[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1778355	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1778356	0.89[JPT][hapmap];0.81[YRI][hapmap]
rs2256542	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2364116	0.85[ASN][1000 genomes]
rs2559522	0.89[JPT][hapmap]
rs2559523	0.89[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs2559524	0.88[JPT][hapmap]
rs2559527	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2559528	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2765994	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2765995	0.89[JPT][hapmap]
rs2765997	0.92[CEU][hapmap];0.96[EUR][1000 genomes]
rs2765998	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2798982	0.89[JPT][hapmap];0.82[YRI][hapmap]
rs2913109	0.89[JPT][hapmap]
rs2913110	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7071450	1.00[CHB][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs7098460	0.89[JPT][hapmap]
rs7099314	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs754822	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7912144	0.89[JPT][hapmap]
rs943194	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs943195	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1830947	chr10:22881196-23004381	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:22844200-22904800	Weak transcription	Rectal Smooth Muscle	rectum
2	chr10:22856600-22899200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr10:22858200-22904000	Weak transcription	Colonic Mucosa	Colon
4	chr10:22862400-22902000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr10:22880000-22906800	Weak transcription	Colon Smooth Muscle	Colon
6	chr10:22880200-22897000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr10:22880400-22896600	Weak transcription	Liver	Liver
8	chr10:22883200-22899200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr10:22886600-22896800	Weak transcription	HSMMtube	muscle
10	chr10:22887200-22902400	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr10:22888800-22898000	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr10:22888800-22905000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr10:22889000-22896800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr10:22889400-22904400	Weak transcription	Hela-S3	cervix
15	chr10:22891000-22896800	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr10:22891000-22897000	Weak transcription	Fetal Intestine Small	intestine
17	chr10:22891000-22901400	Weak transcription	Gastric	stomach
18	chr10:22891000-22904800	Weak transcription	Right Ventricle	heart
19	chr10:22891200-22904800	Weak transcription	NHLF	lung
20	chr10:22891600-22897600	Weak transcription	Left Ventricle	heart
21	chr10:22893200-22896600	Genic enhancers	Primary T cells from cord blood	blood
22	chr10:22893200-22897000	Enhancers	Primary monocytes fromperipheralblood	blood
23	chr10:22893600-22897800	Weak transcription	Fetal Lung	lung
24	chr10:22893600-22902000	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr10:22894000-22897000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr10:22894000-22897000	Weak transcription	Lung	lung
27	chr10:22894000-22898800	Weak transcription	Spleen	Spleen
28	chr10:22894000-22902600	Weak transcription	Right Atrium	heart
29	chr10:22894000-22906600	Weak transcription	Ovary	ovary
30	chr10:22894200-22896800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr10:22894200-22898400	Weak transcription	Small Intestine	intestine
32	chr10:22894200-22904600	Weak transcription	Skeletal Muscle Female	skeletal muscle
33	chr10:22894600-22896600	Genic enhancers	Dnd41	blood
34	chr10:22894600-22896600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
35	chr10:22894600-22897600	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr10:22894600-22899000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr10:22894600-22903000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr10:22894600-22904400	Weak transcription	NHDF-Ad	bronchial
39	chr10:22894600-22904600	Weak transcription	NHEK	skin
40	chr10:22894600-22905000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr10:22894800-22899400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr10:22894800-22904600	Weak transcription	Adipose Nuclei	Adipose
43	chr10:22894800-22913000	Weak transcription	Fetal Kidney	kidney
44	chr10:22895200-22897400	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
45	chr10:22895200-22898400	Genic enhancers	Brain Anterior Caudate	brain
46	chr10:22895200-22899200	Genic enhancers	Primary T cells fromperipheralblood	blood
47	chr10:22895400-22896600	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr10:22895400-22896600	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
49	chr10:22895400-22897200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr10:22895400-22898200	Genic enhancers	Brain Inferior Temporal Lobe	brain

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