Variant report

Variant	rs6484666
Chromosome Location	chr11:33794356-33794357
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1000677	0.88[CEU][hapmap]
rs10742305	0.89[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs10768022	0.83[ASN][1000 genomes]
rs10768024	0.94[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs10768027	0.87[CEU][hapmap];0.88[CHB][hapmap];0.91[JPT][hapmap];0.91[ASN][1000 genomes]
rs10836104	0.89[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs10836105	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11032360	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11032376	0.88[CEU][hapmap]
rs11600785	0.89[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs11826154	0.89[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs12272807	0.88[CHB][hapmap];0.81[ASN][1000 genomes]
rs12295284	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12576094	0.88[CEU][hapmap]
rs1464485	0.88[CEU][hapmap]
rs1915894	0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2177121	0.88[CEU][hapmap]
rs2177122	0.88[CEU][hapmap]
rs2231454	0.92[ASN][1000 genomes]
rs2272067	0.88[CEU][hapmap]
rs3181270	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3181283	0.88[CHB][hapmap];0.83[ASN][1000 genomes]
rs3794200	0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs4517486	0.94[ASN][1000 genomes]
rs57966527	0.90[ASN][1000 genomes]
rs7103573	0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs7104220	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7108627	0.89[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs7115485	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7115596	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs7115945	0.84[ASN][1000 genomes]
rs7119840	0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs7120610	0.88[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs7126723	0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs7127075	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7925488	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs869904	0.88[CEU][hapmap]

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	nsv523356	chr11:33777334-33797408	Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6484666	RAB24	trans	lymphoblastoid	RTeQTL

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:33758800-33795000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr11:33759000-33795200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr11:33769600-33795000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr11:33778800-33794600	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr11:33779600-33795000	Weak transcription	Colonic Mucosa	Colon
6	chr11:33787600-33794400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr11:33787600-33795000	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr11:33788000-33794800	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr11:33788200-33794400	Weak transcription	Fetal Brain Male	brain
10	chr11:33788800-33794800	Weak transcription	HSMMtube	muscle
11	chr11:33789200-33794400	Weak transcription	Fetal Stomach	stomach
12	chr11:33789600-33794800	Weak transcription	HUVEC	blood vessel
13	chr11:33790400-33794800	Weak transcription	Primary hematopoietic stem cells	blood
14	chr11:33790400-33795000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr11:33790800-33795000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr11:33791200-33794400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr11:33791400-33794800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr11:33791400-33794800	Weak transcription	Osteobl	bone
19	chr11:33792000-33794600	Weak transcription	NHDF-Ad	bronchial
20	chr11:33792000-33795000	Weak transcription	HSMM	muscle
21	chr11:33792200-33794400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr11:33792200-33794400	Weak transcription	Fetal Lung	lung
23	chr11:33792200-33794400	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr11:33792200-33794800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
25	chr11:33792200-33795000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr11:33792200-33795000	Weak transcription	Aorta	Aorta
27	chr11:33792400-33794400	Weak transcription	Primary B cells from cord blood	blood
28	chr11:33792400-33794400	Enhancers	Primary T helper cells fromperipheralblood	blood
29	chr11:33792400-33794400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr11:33792400-33794400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr11:33792400-33794600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
32	chr11:33792400-33794600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
33	chr11:33792400-33794800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr11:33792400-33794800	Enhancers	Liver	Liver
35	chr11:33792400-33795000	Weak transcription	Fetal Kidney	kidney
36	chr11:33792400-33795000	Weak transcription	Fetal Muscle Trunk	muscle
37	chr11:33793000-33794800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
38	chr11:33793000-33795000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
39	chr11:33793000-33795000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
40	chr11:33793000-33795000	Enhancers	Placenta Amnion	Placenta Amnion
41	chr11:33793200-33794400	Enhancers	Breast Myoepithelial Primary Cells	Breast
42	chr11:33793200-33794600	Enhancers	Thymus	Thymus
43	chr11:33793200-33794800	Enhancers	Primary T helper cells PMA-I stimulated	--
44	chr11:33793200-33794800	Enhancers	Primary T killer memory cells from peripheral blood	blood
45	chr11:33793200-33794800	Enhancers	Brain Angular Gyrus	brain
46	chr11:33793200-33795000	Enhancers	K562	blood
47	chr11:33793400-33794400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr11:33793400-33794400	Enhancers	Dnd41	blood
49	chr11:33793400-33794400	Enhancers	GM12878-XiMat	blood
50	chr11:33793400-33794600	Enhancers	Primary T helper naive cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links