Variant report

Variant	rs2798982
Chromosome Location	chr10:22908322-22908323
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:22907515..22910323-chr10:23002049..23004371,2	MCF-7	breast:
2	chr10:22725288..22727393-chr10:22906827..22908715,2	MCF-7	breast:
3	chr10:22907517..22909327-chr10:22970416..22973310,2	MCF-7	breast:
4	chr10:22906504..22909168-chr10:22914292..22915841,2	MCF-7	breast:
5	chr10:22898054..22899902-chr10:22906833..22909021,2	K562	blood:
6	chr10:22905924..22908510-chr10:23000876..23002578,2	K562	blood:

Variant related genes	Relation type
ENSG00000150867	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1062190	0.86[CHB][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs10764338	0.86[CHB][hapmap];0.88[JPT][hapmap];0.85[ASN][1000 genomes]
rs11013110	0.85[CHB][hapmap];0.88[JPT][hapmap]
rs1171505	0.88[JPT][hapmap]
rs12254366	1.00[ASN][1000 genomes]
rs12261508	0.86[CHB][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs1326338	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1326341	1.00[CEU][hapmap];0.86[CHB][hapmap];0.88[JPT][hapmap];0.85[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1359642	0.83[ASN][1000 genomes]
rs1409397	0.89[JPT][hapmap]
rs16922479	0.86[CHB][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs1750750	0.89[JPT][hapmap]
rs1750752	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1750754	0.89[JPT][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes]
rs1750755	0.83[AFR][1000 genomes]
rs1750756	0.88[YRI][hapmap]
rs1750757	0.84[CHB][hapmap];0.88[JPT][hapmap];0.88[YRI][hapmap];0.86[ASN][1000 genomes]
rs1750759	0.93[EUR][1000 genomes]
rs1750760	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1750770	0.88[JPT][hapmap]
rs1778302	0.91[EUR][1000 genomes]
rs1778331	0.89[JPT][hapmap]
rs1778351	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1778352	0.89[EUR][1000 genomes]
rs1778353	0.89[JPT][hapmap]
rs1778355	0.89[JPT][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes]
rs1778356	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2559522	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2559523	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2559524	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2559526	0.89[JPT][hapmap];0.82[YRI][hapmap]
rs2559527	0.89[JPT][hapmap]
rs2559528	0.86[JPT][hapmap];0.96[YRI][hapmap]
rs2765994	0.89[JPT][hapmap]
rs2765995	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2765998	0.82[AFR][1000 genomes]
rs2913109	0.90[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2913110	0.89[JPT][hapmap]
rs7094187	0.85[CHB][hapmap];0.88[JPT][hapmap]
rs7095020	0.85[CHB][hapmap];0.88[JPT][hapmap]
rs7098460	0.89[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7099314	0.89[JPT][hapmap]
rs754822	0.89[JPT][hapmap]
rs7912144	0.86[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7916957	0.86[CHB][hapmap];0.88[JPT][hapmap];0.83[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:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:22894800-22913000	Weak transcription	Fetal Kidney	kidney
2	chr10:22899400-22909400	Enhancers	Brain Angular Gyrus	brain
3	chr10:22899800-22909600	Enhancers	Brain Hippocampus Middle	brain
4	chr10:22901400-22909400	Weak transcription	Thymus	Thymus
5	chr10:22901600-22918200	Enhancers	Primary T helper cells fromperipheralblood	blood
6	chr10:22901800-22909400	Enhancers	Primary T cells from cord blood	blood
7	chr10:22901800-22913000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr10:22901800-22918800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
9	chr10:22902400-22921600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr10:22902800-22912400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr10:22903000-22909200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
12	chr10:22903800-22922000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr10:22904000-22910600	Enhancers	Primary T cells fromperipheralblood	blood
14	chr10:22904000-22913200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
15	chr10:22904600-22908400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr10:22904600-22909000	Enhancers	HUVEC	blood vessel
17	chr10:22904600-22909200	Enhancers	Brain Germinal Matrix	brain
18	chr10:22905000-22908800	Weak transcription	Fetal Brain Female	brain
19	chr10:22905000-22910600	Enhancers	HSMM	muscle
20	chr10:22905000-22912400	Enhancers	Primary T helper naive cells from peripheral blood	blood
21	chr10:22905000-22914400	Enhancers	Primary T helper cells PMA-I stimulated	--
22	chr10:22905000-22918600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
23	chr10:22905200-22908400	Enhancers	Primary B cells from peripheral blood	blood
24	chr10:22905200-22909000	Weak transcription	Fetal Stomach	stomach
25	chr10:22905200-22909200	Enhancers	Hela-S3	cervix
26	chr10:22905200-22909600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr10:22905200-22909600	Enhancers	Brain Substantia Nigra	brain
28	chr10:22905200-22912800	Weak transcription	Colonic Mucosa	Colon
29	chr10:22905200-22919400	Enhancers	NHDF-Ad	bronchial
30	chr10:22905400-22909200	Enhancers	Brain Cingulate Gyrus	brain
31	chr10:22905400-22909200	Weak transcription	Fetal Muscle Trunk	muscle
32	chr10:22905400-22909200	Weak transcription	Pancreas	Pancrea
33	chr10:22905400-22909200	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr10:22905400-22910800	Enhancers	GM12878-XiMat	blood
35	chr10:22905400-22911200	Weak transcription	Lung	lung
36	chr10:22905400-22912200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr10:22905400-22913800	Enhancers	Brain Anterior Caudate	brain
38	chr10:22905400-22914400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
39	chr10:22905400-22915400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
40	chr10:22905600-22909600	Weak transcription	Stomach Mucosa	stomach
41	chr10:22905600-22910000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
42	chr10:22905800-22911000	Enhancers	Cortex derived primary cultured neurospheres	brain
43	chr10:22906000-22908400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
44	chr10:22906000-22909400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr10:22906200-22909200	Weak transcription	Gastric	stomach
46	chr10:22906200-22909600	Weak transcription	Spleen	Spleen
47	chr10:22906200-22910400	Enhancers	Fetal Lung	lung
48	chr10:22906400-22910200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr10:22906400-22918200	Enhancers	NHLF	lung
50	chr10:22906600-22909400	Enhancers	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links