Variant report

Variant	rs11042550
Chromosome Location	chr11:9949512-9949513
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10770075	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840315	1.00[CHB][hapmap]
rs10840325	1.00[CHB][hapmap]
rs10840327	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840337	0.81[CEU][hapmap];1.00[CHB][hapmap]
rs10840338	0.88[CEU][hapmap];1.00[CHB][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11042486	1.00[CHB][hapmap]
rs11042500	1.00[CHB][hapmap]
rs11042511	1.00[CHB][hapmap]
rs11042526	1.00[CHB][hapmap]
rs11042543	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11042547	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042554	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042556	1.00[CHB][hapmap]
rs11042557	1.00[ASN][1000 genomes]
rs11042559	0.88[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042561	0.88[CEU][hapmap];1.00[CHB][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042571	1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11042579	0.88[CEU][hapmap];1.00[CHB][hapmap]
rs11042595	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs11042601	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs11042609	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs11042615	0.83[CEU][hapmap]
rs11042618	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs11042623	0.81[CEU][hapmap];1.00[CHB][hapmap]
rs11042632	0.80[CEU][hapmap]
rs11524438	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11602465	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11602515	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11607582	1.00[CHB][hapmap]
rs12417800	0.81[AMR][1000 genomes]
rs12418212	0.93[CEU][hapmap]
rs12419564	1.00[CHB][hapmap]
rs12419923	0.88[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12420734	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs12421096	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs12421179	0.81[CEU][hapmap];1.00[CHB][hapmap]
rs12421200	0.88[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12808226	1.00[CHB][hapmap]
rs17268632	1.00[CHB][hapmap]
rs17270804	1.00[CHB][hapmap]
rs17271847	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17355675	1.00[CHB][hapmap]
rs17355924	1.00[CHB][hapmap]
rs17356792	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4909915	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4909916	0.86[AMR][1000 genomes]
rs4910075	1.00[CHB][hapmap]
rs4910080	0.93[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4910081	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4910084	1.00[CHB][hapmap]
rs4910505	1.00[CHB][hapmap]
rs55784591	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876937	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs61876943	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876944	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876946	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876947	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7116452	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7129288	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7130670	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7131445	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7928959	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs7932661	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7938502	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs7938647	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs7943610	1.00[CHB][hapmap]
rs7950447	0.82[CEU][hapmap];1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933855	chr11:9645441-10130519	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	esv2762895	chr11:9849511-9954549	Flanking Active TSS Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv896988	chr11:9912052-10012511	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1041148	chr11:9927980-9954537	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9878800-9952200	Weak transcription	Aorta	Aorta
2	chr11:9894400-9978600	Weak transcription	Left Ventricle	heart
3	chr11:9910000-9954600	Weak transcription	Pancreas	Pancrea
4	chr11:9917600-9951800	Weak transcription	Stomach Smooth Muscle	stomach
5	chr11:9917600-9952400	Weak transcription	Primary monocytes fromperipheralblood	blood
6	chr11:9917800-9952600	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr11:9923400-9952200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr11:9925400-9951000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr11:9925400-9952200	Weak transcription	Lung	lung
10	chr11:9929000-9952000	Weak transcription	Fetal Lung	lung
11	chr11:9929200-9966800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr11:9929600-9953000	Weak transcription	HSMMtube	muscle
13	chr11:9934800-9952200	Weak transcription	Fetal Stomach	stomach
14	chr11:9935800-9952000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr11:9936200-9951800	Weak transcription	Monocytes-CD14+_RO01746	blood
16	chr11:9936200-9952000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr11:9941600-9952400	Weak transcription	Fetal Brain Female	brain
18	chr11:9942200-9952200	Weak transcription	Fetal Intestine Large	intestine
19	chr11:9943400-9980600	Weak transcription	Primary T cells from cord blood	blood
20	chr11:9943600-9952200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr11:9944600-9952800	Weak transcription	Liver	Liver
22	chr11:9944800-9951200	Weak transcription	Adipose Nuclei	Adipose
23	chr11:9944800-9951600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr11:9944800-9952000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr11:9944800-9952000	Weak transcription	Fetal Muscle Leg	muscle
26	chr11:9944800-9952200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr11:9944800-9952400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr11:9944800-9952400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
29	chr11:9944800-9961000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr11:9944800-9969000	Weak transcription	Ovary	ovary
31	chr11:9945000-9951200	Weak transcription	HSMM	muscle
32	chr11:9945000-9954000	Weak transcription	HMEC	breast
33	chr11:9945000-9967600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr11:9945400-9952000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr11:9945400-9952200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr11:9945400-9964800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr11:9945600-9955200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr11:9945600-9958400	Weak transcription	NHDF-Ad	bronchial
39	chr11:9945800-9952000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr11:9946000-9950400	Weak transcription	HUES48 Cell Line	embryonic stem cell
41	chr11:9946000-9951800	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr11:9946400-9952000	Weak transcription	HUES6 Cell Line	embryonic stem cell
43	chr11:9946400-9952200	Weak transcription	H1 Cell Line	embryonic stem cell
44	chr11:9946600-9952200	Weak transcription	Fetal Intestine Small	intestine
45	chr11:9948800-9950800	Enhancers	iPS-18 Cell Line	embryonic stem cell
46	chr11:9949000-9952200	Weak transcription	Esophagus	oesophagus
47	chr11:9949200-9949600	Enhancers	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links