Variant report

Variant	rs11576862
Chromosome Location	chr1:175906503-175906504
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10436864	0.88[EUR][1000 genomes]
rs10798427	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs10798428	0.82[EUR][1000 genomes]
rs11579181	1.00[JPT][hapmap]
rs11580753	1.00[ASN][1000 genomes]
rs11583071	1.00[ASN][1000 genomes]
rs11584481	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11588480	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11590045	1.00[ASN][1000 genomes]
rs12404181	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1357337	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs17351808	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2481627	0.91[CEU][hapmap]
rs2481647	0.83[CEU][hapmap]
rs2481657	0.91[CEU][hapmap]
rs2502822	0.91[CEU][hapmap]
rs2502826	0.91[CEU][hapmap]
rs2502832	0.91[CEU][hapmap]
rs2502836	0.91[CEU][hapmap]
rs2502841	0.91[CEU][hapmap]
rs2502842	0.91[CEU][hapmap]
rs2861630	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4129061	0.90[CEU][hapmap]
rs4460596	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4601543	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56051510	1.00[ASN][1000 genomes]
rs56198111	1.00[ASN][1000 genomes]
rs56949697	1.00[ASN][1000 genomes]
rs60719126	0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs60964243	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61186664	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61820953	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61820960	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61820965	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61820968	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61820999	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs61821007	1.00[ASN][1000 genomes]
rs61821009	1.00[ASN][1000 genomes]
rs61822767	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6425368	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs6680309	1.00[JPT][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6693947	0.98[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6704509	0.91[CEU][hapmap]
rs74127150	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74127154	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7517351	0.91[CEU][hapmap];0.86[EUR][1000 genomes]
rs7537435	0.86[EUR][1000 genomes]
rs7545043	0.91[CEU][hapmap];0.81[EUR][1000 genomes]
rs7552181	0.91[CEU][hapmap];0.86[EUR][1000 genomes]
rs7554913	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs9783047	0.91[CEU][hapmap];0.82[EUR][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	esv33328	chr1:175446583-175910001	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	esv1823794	chr1:175869554-176311778	Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:175874400-175945600	Weak transcription	A549	lung
2	chr1:175880000-175937800	Weak transcription	HSMMtube	muscle
3	chr1:175881000-175924200	Weak transcription	Brain Angular Gyrus	brain
4	chr1:175882600-175910200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr1:175883200-175908200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr1:175886400-175929400	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr1:175887800-175929800	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr1:175889200-175937800	Weak transcription	Osteobl	bone
9	chr1:175891400-175908800	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr1:175892000-175908800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr1:175892400-175940600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr1:175893200-175943000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr1:175895200-175908800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr1:175895800-175908800	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr1:175897000-175953000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr1:175897200-175908800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr1:175897600-175908400	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr1:175897600-175908800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr1:175897600-175909200	Weak transcription	Brain Germinal Matrix	brain
20	chr1:175897600-175911000	Weak transcription	Thymus	Thymus
21	chr1:175897600-175953200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr1:175897800-175952400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr1:175898400-175909000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr1:175898600-175953200	Weak transcription	Pancreas	Pancrea
25	chr1:175898800-175909000	Weak transcription	Left Ventricle	heart
26	chr1:175899000-175908800	Weak transcription	Fetal Intestine Large	intestine
27	chr1:175899200-175953200	Weak transcription	Esophagus	oesophagus
28	chr1:175899600-175907200	Weak transcription	Fetal Intestine Small	intestine
29	chr1:175900800-175907400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr1:175900800-175908400	Weak transcription	Dnd41	blood
31	chr1:175901400-175908600	Weak transcription	Primary T helper cells fromperipheralblood	blood
32	chr1:175901600-175940600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr1:175901800-175925800	Weak transcription	HUVEC	blood vessel
34	chr1:175902400-175914800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr1:175902400-175917800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr1:175902600-175909000	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr1:175902800-175931800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr1:175903200-175907800	Weak transcription	Adipose Nuclei	Adipose
39	chr1:175903200-175909200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr1:175903200-175924200	Weak transcription	Gastric	stomach
41	chr1:175903400-175951400	Weak transcription	K562	blood
42	chr1:175903600-175909000	Weak transcription	Duodenum Mucosa	Duodenum
43	chr1:175903600-175940800	Weak transcription	HMEC	breast
44	chr1:175903800-175908600	Weak transcription	Placenta	Placenta
45	chr1:175903800-175915800	Weak transcription	GM12878-XiMat	blood
46	chr1:175904000-175907600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
47	chr1:175904000-175908600	Weak transcription	Primary hematopoietic stem cells	blood
48	chr1:175904200-175906800	Enhancers	HUES6 Cell Line	embryonic stem cell
49	chr1:175904200-175908600	Weak transcription	Primary B cells from cord blood	blood
50	chr1:175904200-175908600	Weak transcription	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links