Variant report

Variant	rs16907989
Chromosome Location	chr11:10588069-10588070
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:10586141..10588263-chr11:10828344..10830419,2	K562	blood:
2	chr11:10563286..10564980-chr11:10587145..10589846,2	K562	blood:

Variant related genes	Relation type
ENSG00000110321	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10219205	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10219352	0.91[ASN][1000 genomes]
rs10500726	0.83[CEU][hapmap]
rs1062912	0.86[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs1074375	0.83[CEU][hapmap]
rs1074377	0.83[CEU][hapmap]
rs10770123	0.82[CEU][hapmap]
rs10770126	0.81[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs10840438	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10840440	0.86[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs10840441	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10840443	0.86[JPT][hapmap]
rs10840446	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs11042875	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11042876	0.86[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs11042877	0.86[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs11042879	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11042882	0.86[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11042883	0.81[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs11042894	0.81[ASN][1000 genomes]
rs11042895	0.82[CHB][hapmap];0.84[JPT][hapmap]
rs12288969	0.91[ASN][1000 genomes]
rs1964537	0.86[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs1993817	0.83[CEU][hapmap]
rs1993818	0.82[CEU][hapmap]
rs1993819	0.82[CEU][hapmap]
rs2288236	0.86[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs3741033	0.85[JPT][hapmap]
rs3741034	0.92[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4910153	0.82[CEU][hapmap]
rs4910162	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6484344	0.85[CEU][hapmap]
rs7115310	0.86[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7118551	0.89[ASN][1000 genomes]
rs7126245	0.81[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs7358373	0.85[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs746164	0.86[CHB][hapmap];0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs7941294	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7951653	0.86[CEU][hapmap]
rs918981	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[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	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16907989	MRVI1	cis	normal skin	skin_eQTL

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10573000-10603200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr11:10578200-10590000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr11:10580400-10590000	Weak transcription	Ovary	ovary
4	chr11:10580600-10609800	Weak transcription	Thymus	Thymus
5	chr11:10583000-10600000	Weak transcription	Fetal Intestine Large	intestine
6	chr11:10583200-10588200	Weak transcription	HUVEC	blood vessel
7	chr11:10583200-10601800	Weak transcription	Fetal Intestine Small	intestine
8	chr11:10583600-10595800	Weak transcription	Colon Smooth Muscle	Colon
9	chr11:10584000-10589800	Weak transcription	Lung	lung
10	chr11:10584000-10591200	Weak transcription	Aorta	Aorta
11	chr11:10585000-10590400	Weak transcription	Brain Cingulate Gyrus	brain
12	chr11:10585800-10590000	Active TSS	Placenta	Placenta
13	chr11:10586000-10588400	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr11:10586000-10590400	Active TSS	Adipose Nuclei	Adipose
15	chr11:10586200-10594400	Weak transcription	Fetal Stomach	stomach
16	chr11:10586200-10594800	Weak transcription	Spleen	Spleen
17	chr11:10586400-10620400	Weak transcription	Brain Anterior Caudate	brain
18	chr11:10586600-10594000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr11:10586800-10588400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr11:10586800-10588600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr11:10586800-10590200	Weak transcription	NHDF-Ad	bronchial
22	chr11:10587200-10588600	Enhancers	Monocytes-CD14+_RO01746	blood
23	chr11:10587200-10594200	Weak transcription	Primary B cells from cord blood	blood
24	chr11:10587200-10594400	Weak transcription	Primary neutrophils fromperipheralblood	blood
25	chr11:10587200-10595600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr11:10587400-10589400	Active TSS	Fetal Adrenal Gland	Adrenal Gland
27	chr11:10587600-10588400	Active TSS	Fetal Muscle Leg	muscle
28	chr11:10587600-10605000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr11:10588000-10588200	Enhancers	Primary B cells from peripheral blood	blood
30	chr11:10588000-10588200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr11:10588000-10588800	Active TSS	Fetal Kidney	kidney
32	chr11:10588000-10589000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr11:10588000-10590000	Active TSS	Right Atrium	heart
34	chr11:10588000-10590200	Active TSS	Liver	Liver
35	chr11:10588000-10590200	Active TSS	Duodenum Smooth Muscle	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links