Variant report

Variant	rs10198045
Chromosome Location	chr2:11503173-11503174
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:11500952..11503816-chr2:11504452..11506520,2	MCF-7	breast:
2	chr2:11502724..11505633-chr2:11505790..11508071,2	K562	blood:

Variant related genes	Relation type
ENSG00000230952	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10168084	0.89[JPT][hapmap]
rs10192483	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs10495582	0.91[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap]
rs10754958	0.91[CHB][hapmap];0.92[CHD][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs11680818	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs11693061	0.87[ASN][1000 genomes]
rs11891012	0.82[CHB][hapmap]
rs12468344	0.88[ASN][1000 genomes]
rs12470004	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs12475086	0.91[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap]
rs12478098	0.91[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap]
rs12987956	0.82[CHB][hapmap];0.88[CHD][hapmap]
rs13022598	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs13424069	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs1515219	0.91[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap]
rs1546597	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs1546598	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs17366643	0.91[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap]
rs17366657	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs17366874	0.89[JPT][hapmap]
rs17463896	0.91[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap]
rs1901010	0.91[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs2011812	0.91[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap]
rs2056103	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs2122383	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs3771106	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs4302194	0.88[ASN][1000 genomes]
rs4477886	0.86[CHB][hapmap];0.95[JPT][hapmap]
rs56211149	0.88[ASN][1000 genomes]
rs56309145	0.83[ASN][1000 genomes]
rs59048275	0.85[ASN][1000 genomes]
rs6716447	0.86[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap]
rs6716817	0.86[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap]
rs6728627	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs6736194	0.82[CHB][hapmap]
rs6739310	0.82[CHB][hapmap]
rs6743710	0.81[CHB][hapmap]
rs6753921	0.91[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap]
rs726843	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs7589152	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs7589629	0.89[JPT][hapmap]
rs8996	0.91[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap]
rs978906	0.91[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap]

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	nsv1010506	chr2:11430965-12057286	Enhancers Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers 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	88 gene(s)	inside rSNPs	diseases
2	nsv535585	chr2:11430965-12057286	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:11497600-11507400	Weak transcription	Fetal Brain Female	brain
2	chr2:11498000-11504400	Weak transcription	Fetal Muscle Trunk	muscle
3	chr2:11498200-11505200	Weak transcription	Spleen	Spleen
4	chr2:11498200-11505400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr2:11498200-11505400	Weak transcription	Liver	Liver
6	chr2:11498200-11505600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr2:11498200-11507400	Weak transcription	Small Intestine	intestine
8	chr2:11498200-11508000	Weak transcription	Right Atrium	heart
9	chr2:11498800-11505400	Weak transcription	Fetal Muscle Leg	muscle
10	chr2:11498800-11505400	Weak transcription	Placenta	Placenta
11	chr2:11498800-11505600	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr2:11500000-11505200	Weak transcription	Fetal Stomach	stomach
13	chr2:11500000-11505400	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr2:11500000-11505600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr2:11500000-11507600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr2:11500200-11505600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr2:11500200-11507600	Weak transcription	Brain Germinal Matrix	brain
18	chr2:11500400-11503800	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr2:11500400-11507400	Weak transcription	Fetal Lung	lung
20	chr2:11502000-11504400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
21	chr2:11502400-11504200	Enhancers	Fetal Intestine Large	intestine
22	chr2:11502600-11503400	Enhancers	K562	blood
23	chr2:11502600-11504200	Enhancers	Fetal Intestine Small	intestine
24	chr2:11502800-11503200	Enhancers	Osteobl	bone
25	chr2:11502800-11503400	Enhancers	A549	lung
26	chr2:11502800-11503400	Enhancers	NHEK	skin
27	chr2:11503000-11503400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr2:11503000-11503400	Enhancers	Hela-S3	cervix
29	chr2:11503000-11503400	Flanking Bivalent TSS/Enh	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links