Variant report

Variant	rs11821781
Chromosome Location	chr11:16367750-16367751
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:16367238..16369863-chr11:16387081..16389640,2	K562	blood:
2	chr11:16363617..16366056-chr11:16367195..16369050,3	K562	blood:
3	chr11:16265955..16267897-chr11:16366139..16368672,2	K562	blood:
4	chr11:16358051..16362948-chr11:16363302..16371497,10	K562	blood:
5	chr11:16366433..16369259-chr11:16625981..16628041,3	K562	blood:
6	chr11:16114661..16117349-chr11:16367658..16369395,2	K562	blood:
7	chr11:15951824..15953776-chr11:16367322..16370223,2	K562	blood:

Variant related genes	Relation type
ENSG00000110693	Chromatin interaction

Extended variants
information (count: 106 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:104)

rs_ID	r²[population]
rs10430890	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10430891	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10734239	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10741693	0.94[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs10741694	0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10741695	0.85[ASN][1000 genomes]
rs10766309	0.84[ASN][1000 genomes]
rs10766312	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10766314	0.95[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.85[ASN][1000 genomes]
rs10766315	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10766318	0.96[ASN][1000 genomes]
rs10832558	0.83[JPT][hapmap]
rs10832571	0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.84[ASN][1000 genomes]
rs10832573	0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.85[ASN][1000 genomes]
rs10832575	0.85[ASN][1000 genomes]
rs10832576	0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.85[ASN][1000 genomes]
rs10832578	0.85[ASN][1000 genomes]
rs10832579	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10832582	0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10832584	0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.85[ASN][1000 genomes]
rs10832585	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10832586	0.84[ASN][1000 genomes]
rs11023890	0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.85[ASN][1000 genomes]
rs11023893	0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11023897	0.83[ASN][1000 genomes]
rs11023901	0.81[ASN][1000 genomes]
rs11023902	0.85[ASN][1000 genomes]
rs11023906	0.97[ASN][1000 genomes]
rs11023907	1.00[CHB][hapmap];0.94[CHD][hapmap];0.92[JPT][hapmap];0.87[MEX][hapmap];0.95[ASN][1000 genomes]
rs11023908	0.96[ASN][1000 genomes]
rs11023909	1.00[CHB][hapmap];0.92[JPT][hapmap];0.97[ASN][1000 genomes]
rs11023910	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs11023912	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs11023928	1.00[JPT][hapmap]
rs1155685	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1156725	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.96[ASN][1000 genomes]
rs11822790	0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs12798653	0.96[ASN][1000 genomes]
rs12798854	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs12798980	0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.85[ASN][1000 genomes]
rs12799126	0.94[CHB][hapmap];0.89[JPT][hapmap];0.96[ASN][1000 genomes]
rs12800049	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs12800659	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.96[ASN][1000 genomes]
rs12801635	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];1.00[ASN][1000 genomes]
rs1304640	0.85[ASN][1000 genomes]
rs1347677	0.95[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.85[ASN][1000 genomes]
rs1401455	0.96[ASN][1000 genomes]
rs1519119	0.85[ASN][1000 genomes]
rs1519120	0.85[ASN][1000 genomes]
rs1519121	0.85[ASN][1000 genomes]
rs1519122	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1519128	0.85[ASN][1000 genomes]
rs1583611	0.85[ASN][1000 genomes]
rs1589197	0.85[ASN][1000 genomes]
rs1595373	0.95[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.85[ASN][1000 genomes]
rs1595374	0.85[ASN][1000 genomes]
rs1607481	0.85[ASN][1000 genomes]
rs16932777	1.00[JPT][hapmap]
rs16932862	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs16932899	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1829417	0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1829418	0.93[ASN][1000 genomes]
rs1837096	0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.84[ASN][1000 genomes]
rs1866110	0.85[ASN][1000 genomes]
rs1898502	0.85[ASN][1000 genomes]
rs1966697	0.95[ASN][1000 genomes]
rs1966698	0.91[ASN][1000 genomes]
rs2014408	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2028162	0.82[CHD][hapmap];1.00[JPT][hapmap]
rs2118363	0.85[ASN][1000 genomes]
rs2164782	0.85[ASN][1000 genomes]
rs2164784	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2164785	0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.85[ASN][1000 genomes]
rs2196636	0.84[ASN][1000 genomes]
rs2218001	0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2351962	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2351963	0.85[ASN][1000 genomes]
rs2882811	0.80[YRI][hapmap]
rs3985603	0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.84[ASN][1000 genomes]
rs4336994	0.85[ASN][1000 genomes]
rs4628642	0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs4757391	0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs6486284	0.85[ASN][1000 genomes]
rs7101502	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7111718	0.85[ASN][1000 genomes]
rs7113955	0.88[ASN][1000 genomes]
rs7118275	0.85[ASN][1000 genomes]
rs7121869	0.81[CHB][hapmap];1.00[ASN][1000 genomes]
rs7127937	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7131442	0.95[ASN][1000 genomes]
rs7927191	1.00[JPT][hapmap]
rs7938055	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs7949077	0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs7952254	0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs893311	1.00[CHB][hapmap];0.92[JPT][hapmap];0.97[ASN][1000 genomes]
rs962095	0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.85[ASN][1000 genomes]
rs962096	0.85[ASN][1000 genomes]
rs977508	0.85[ASN][1000 genomes]
rs990534	0.85[ASN][1000 genomes]
rs991612	0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs996954	0.85[ASN][1000 genomes]
rs9971406	0.83[ASN][1000 genomes]
rs9971543	0.85[ASN][1000 genomes]
rs997506	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][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	nsv529731	chr11:16122782-16468170	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv553566	chr11:16329009-16799044	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11821781	CALCA	cis	cerebellum	SCAN
rs11821781	RASSF10	cis	cerebellum	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:16319400-16377600	Weak transcription	Psoas Muscle	Psoas
2	chr11:16348800-16368600	Weak transcription	Brain Germinal Matrix	brain
3	chr11:16358200-16368600	Weak transcription	Pancreas	Pancrea
4	chr11:16360200-16369200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr11:16362400-16368800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr11:16362800-16368600	Weak transcription	Left Ventricle	heart
7	chr11:16362800-16369000	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr11:16366400-16369800	Enhancers	Fetal Intestine Large	intestine
9	chr11:16366400-16369800	Enhancers	Fetal Intestine Small	intestine
10	chr11:16366800-16368200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr11:16366800-16368600	Enhancers	K562	blood
12	chr11:16367000-16369200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr11:16367000-16376400	Weak transcription	HepG2	liver
14	chr11:16367400-16370000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr11:16367600-16368200	Enhancers	Skeletal Muscle Female	skeletal muscle
16	chr11:16367600-16369200	Enhancers	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links