Variant report

Variant	rs7090286
Chromosome Location	chr10:22958977-22958978
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:22957484..22960140-chr10:22963875..22966697,2	K562	blood:
2	chr10:22956707..22959461-chr10:22967862..22970334,2	MCF-7	breast:
3	chr10:22953483..22956745-chr10:22958221..22961300,4	K562	blood:

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10159697	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10159847	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10218845	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10508650	0.89[CEU][hapmap];1.00[JPT][hapmap]
rs10508651	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.82[ASN][1000 genomes]
rs10828320	1.00[JPT][hapmap];0.83[MKK][hapmap]
rs11013103	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11013105	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11013106	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11592199	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12098721	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap];0.82[ASN][1000 genomes]
rs12255136	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12257665	1.00[CHB][hapmap]
rs12260163	0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1624192	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1626919	0.81[CEU][hapmap]
rs1631873	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16922530	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16922539	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap]
rs16922560	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs16922564	0.90[CEU][hapmap];1.00[CHB][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap]
rs16922578	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16922580	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16922586	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17525760	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs17526135	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1778302	1.00[JPT][hapmap]
rs1778317	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1778327	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1778352	1.00[CHD][hapmap]
rs35355312	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs45484796	1.00[ASN][1000 genomes]
rs45496900	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45520040	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs45620939	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61228116	1.00[ASN][1000 genomes]
rs6482227	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6482228	1.00[JPT][hapmap]
rs7071198	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7075433	1.00[JPT][hapmap]
rs7075499	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap]
rs7093543	0.82[GIH][hapmap];1.00[MKK][hapmap]
rs7100490	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7900517	1.00[JPT][hapmap]
rs7902016	0.90[CEU][hapmap];1.00[CHB][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap]
rs7915780	0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7919243	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7924019	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs997650	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[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	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
2	nsv831809	chr10:22918101-23069676	Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:22942400-22959800	Weak transcription	Right Ventricle	heart
2	chr10:22946200-22961600	Weak transcription	Aorta	Aorta
3	chr10:22948000-22961400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr10:22949000-22959800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr10:22949000-22965000	Weak transcription	Right Atrium	heart
6	chr10:22949200-22969600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr10:22949800-22960600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr10:22950000-22961400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr10:22952000-22963000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr10:22952000-22970200	Weak transcription	Esophagus	oesophagus
11	chr10:22952200-22960400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr10:22952400-22961400	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr10:22952400-22970000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr10:22954800-22959000	Flanking Active TSS	Primary T cells from cord blood	blood
15	chr10:22955200-22959600	Enhancers	Brain Substantia Nigra	brain
16	chr10:22955800-22959400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr10:22955800-22959400	Weak transcription	Osteobl	bone
18	chr10:22955800-22962800	Weak transcription	Fetal Kidney	kidney
19	chr10:22955800-22970200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr10:22956000-22959000	Enhancers	Primary hematopoietic stem cells	blood
21	chr10:22956000-22960200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr10:22956000-22970400	Weak transcription	NHLF	lung
23	chr10:22956200-22959000	Enhancers	Primary hematopoietic stem cells short term culture	blood
24	chr10:22956200-22961600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr10:22956200-22968200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
26	chr10:22956200-22970200	Weak transcription	Liver	Liver
27	chr10:22956400-22961400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr10:22956600-22959600	Enhancers	Primary T cells fromperipheralblood	blood
29	chr10:22956800-22959200	Enhancers	Brain Angular Gyrus	brain
30	chr10:22956800-22959200	Enhancers	Fetal Thymus	thymus
31	chr10:22956800-22959400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
32	chr10:22956800-22967000	Enhancers	Brain Cingulate Gyrus	brain
33	chr10:22956800-22971600	Weak transcription	Primary B cells from cord blood	blood
34	chr10:22957000-22960000	Enhancers	Dnd41	blood
35	chr10:22957000-22961000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr10:22957200-22961800	Weak transcription	Lung	lung
37	chr10:22957400-22959000	Enhancers	iPS-15b Cell Line	embryonic stem cell
38	chr10:22957400-22959000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
39	chr10:22957400-22963200	Enhancers	Brain Germinal Matrix	brain
40	chr10:22957800-22959000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
41	chr10:22958000-22959000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
42	chr10:22958000-22959400	Enhancers	Primary B cells from peripheral blood	blood
43	chr10:22958000-22963600	Enhancers	Brain Inferior Temporal Lobe	brain
44	chr10:22958200-22959000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
45	chr10:22958200-22959200	Enhancers	Duodenum Mucosa	Duodenum
46	chr10:22958200-22959200	Enhancers	Spleen	Spleen
47	chr10:22958200-22959600	Enhancers	H1 Cell Line	embryonic stem cell
48	chr10:22958200-22959800	Weak transcription	Fetal Brain Female	brain
49	chr10:22958200-22962800	Weak transcription	Duodenum Smooth Muscle	Duodenum
50	chr10:22958200-22965200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links