Variant report

Variant	rs12199875
Chromosome Location	chr6:132016840-132016841
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	chr6:132007332..132009041-chr6:132015162..132016904,2	K562	blood:

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10457574	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10457575	0.84[ASN][1000 genomes]
rs11154642	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12192518	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12193853	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12193980	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12199015	0.83[ASN][1000 genomes]
rs12204520	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12206403	0.85[ASN][1000 genomes]
rs12206779	0.82[ASN][1000 genomes]
rs12207523	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12207688	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12210900	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12530416	0.81[ASN][1000 genomes]
rs17060552	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2270089	0.83[ASN][1000 genomes]
rs2286453	0.88[ASN][1000 genomes]
rs2286454	0.88[ASN][1000 genomes]
rs28671630	0.85[ASN][1000 genomes]
rs3213693	0.82[ASN][1000 genomes]
rs3213694	0.98[ASN][1000 genomes]
rs3778569	0.96[ASN][1000 genomes]
rs3778570	0.97[ASN][1000 genomes]
rs3778571	0.98[ASN][1000 genomes]
rs3800193	0.99[ASN][1000 genomes]
rs3800194	0.99[ASN][1000 genomes]
rs3800195	0.99[ASN][1000 genomes]
rs3800198	0.84[ASN][1000 genomes]
rs3800199	0.82[ASN][1000 genomes]
rs3800200	0.82[ASN][1000 genomes]
rs3843996	0.82[ASN][1000 genomes]
rs3850247	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3850249	0.85[ASN][1000 genomes]
rs3861467	0.85[ASN][1000 genomes]
rs3861468	0.85[ASN][1000 genomes]
rs3904056	0.83[ASN][1000 genomes]
rs4126646	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4897536	0.82[ASN][1000 genomes]
rs55931014	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56947999	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs60048051	0.88[ASN][1000 genomes]
rs60507180	0.80[ASN][1000 genomes]
rs6569753	0.85[ASN][1000 genomes]
rs6901900	0.96[ASN][1000 genomes]
rs6908953	0.84[ASN][1000 genomes]
rs6909448	0.84[ASN][1000 genomes]
rs6922526	0.97[ASN][1000 genomes]
rs6922673	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6931997	0.84[ASN][1000 genomes]
rs6935272	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6941622	0.85[ASN][1000 genomes]
rs72999288	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73001214	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73554727	0.84[ASN][1000 genomes]
rs7738667	0.83[ASN][1000 genomes]
rs7745372	0.82[ASN][1000 genomes]
rs7746945	0.85[ASN][1000 genomes]
rs7762879	0.89[ASN][1000 genomes]
rs7765347	0.80[ASN][1000 genomes]
rs9321307	0.88[ASN][1000 genomes]
rs9321308	0.90[ASN][1000 genomes]
rs9483311	0.86[ASN][1000 genomes]
rs9483321	0.96[ASN][1000 genomes]
rs9483334	0.82[ASN][1000 genomes]
rs9483335	0.81[ASN][1000 genomes]
rs9493038	0.84[ASN][1000 genomes]
rs9493042	0.87[ASN][1000 genomes]
rs9493046	0.89[ASN][1000 genomes]
rs9493048	0.88[ASN][1000 genomes]
rs9493050	0.97[ASN][1000 genomes]
rs9493057	0.99[ASN][1000 genomes]
rs9493081	0.84[ASN][1000 genomes]
rs9493082	0.84[ASN][1000 genomes]
rs9493083	0.82[ASN][1000 genomes]
rs9493084	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv515476	chr6:131615425-132228577	Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv7968	chr6:131917172-132321099	Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv830809	chr6:131953928-132126417	Bivalent Enhancer Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
4	nsv830810	chr6:131960923-132138396	Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
5	nsv886669	chr6:131991532-132059074	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	esv1825552	chr6:132015084-132035688	Weak transcription Strong transcription Enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:131993600-132020600	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr6:131998600-132054000	Weak transcription	Fetal Intestine Small	intestine
3	chr6:131998800-132043000	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr6:131999200-132017600	Weak transcription	Fetal Intestine Large	intestine
5	chr6:131999400-132020600	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr6:132002600-132054400	Weak transcription	K562	blood
7	chr6:132012200-132017400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr6:132014600-132019400	Strong transcription	HepG2	liver
9	chr6:132015200-132018400	Weak transcription	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links