Variant report

Variant	rs12661400
Chromosome Location	chr6:33696477-33696478
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:33421243..33423497-chr6:33695683..33697843,2	K562	blood:
2	chr6:33694998..33697623-chr6:33697893..33701266,3	K562	blood:
3	chr6:33695701..33698175-chr6:33702130..33704789,2	K562	blood:

Variant related genes	Relation type
ENSG00000213588	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10456075	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10947426	0.87[AFR][1000 genomes]
rs10947432	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12153870	0.87[AFR][1000 genomes]
rs12189725	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12190155	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12192035	0.85[ASN][1000 genomes]
rs12193658	0.84[EUR][1000 genomes]
rs12195707	0.87[AFR][1000 genomes]
rs12199132	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12203688	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12205398	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12205667	0.87[AFR][1000 genomes]
rs12211490	0.88[ASN][1000 genomes]
rs12211554	0.88[ASN][1000 genomes]
rs12211565	0.88[ASN][1000 genomes]
rs12215329	0.88[ASN][1000 genomes]
rs12660955	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12662447	0.84[EUR][1000 genomes]
rs13200063	0.88[ASN][1000 genomes]
rs13204162	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13204975	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13206228	0.88[ASN][1000 genomes]
rs13207666	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13213889	0.83[ASN][1000 genomes]
rs13214874	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13220421	0.87[AFR][1000 genomes]
rs2274459	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2281831	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2281917	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2281918	0.89[AFR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2281919	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2296737	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2296749	0.88[ASN][1000 genomes]
rs34139049	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs34339105	0.88[ASN][1000 genomes]
rs34472165	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs34517899	0.87[AFR][1000 genomes]
rs34778247	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs34869648	0.88[ASN][1000 genomes]
rs34884883	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs35088242	0.87[AFR][1000 genomes]
rs35095444	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs35274562	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs35646598	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs35698850	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35721478	0.88[ASN][1000 genomes]
rs35797388	0.88[ASN][1000 genomes]
rs36097803	0.87[AFR][1000 genomes]
rs36122085	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs3818526	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3818532	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs66670017	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs68168863	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs729376	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs751095	0.88[ASN][1000 genomes]
rs755239	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs877187	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9296097	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9469554	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830638	chr6:33551202-33711346	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	46 gene(s)	inside rSNPs	diseases
2	nsv830639	chr6:33592022-33711346	Strong transcription Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	30 gene(s)	inside rSNPs	diseases
3	nsv885772	chr6:33638180-33767727	Bivalent Enhancer Genic enhancers Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33680000-33698400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr6:33680000-33705000	Weak transcription	Brain Angular Gyrus	brain
3	chr6:33686200-33700200	Weak transcription	Liver	Liver
4	chr6:33686400-33710600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr6:33686600-33698600	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr6:33688800-33698200	Weak transcription	Lung	lung
7	chr6:33688800-33700000	Strong transcription	HSMM	muscle
8	chr6:33689200-33696800	Strong transcription	HSMMtube	muscle
9	chr6:33689600-33696600	Enhancers	Fetal Brain Male	brain
10	chr6:33690800-33708200	Weak transcription	Gastric	stomach
11	chr6:33691800-33711600	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr6:33692000-33696800	Weak transcription	Brain Cingulate Gyrus	brain
13	chr6:33692000-33697000	Weak transcription	Psoas Muscle	Psoas
14	chr6:33692000-33706800	Weak transcription	Fetal Intestine Small	intestine
15	chr6:33692000-33710200	Weak transcription	Colon Smooth Muscle	Colon
16	chr6:33692600-33699200	Weak transcription	Fetal Lung	lung
17	chr6:33692800-33701000	Weak transcription	Fetal Brain Female	brain
18	chr6:33693000-33698600	Strong transcription	Brain Hippocampus Middle	brain
19	chr6:33693200-33697200	Strong transcription	Brain Inferior Temporal Lobe	brain
20	chr6:33693200-33698200	Genic enhancers	Skeletal Muscle Female	skeletal muscle
21	chr6:33693200-33700800	Strong transcription	Fetal Muscle Leg	muscle
22	chr6:33693400-33701200	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr6:33693600-33712000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr6:33694000-33697600	Enhancers	Pancreas	Pancrea
25	chr6:33694000-33710600	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr6:33694600-33699400	Enhancers	Right Ventricle	heart
27	chr6:33695000-33696600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr6:33695000-33702400	Weak transcription	Brain Anterior Caudate	brain
29	chr6:33695200-33697400	Enhancers	Left Ventricle	heart
30	chr6:33695200-33700000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr6:33695400-33698200	Weak transcription	Fetal Muscle Trunk	muscle
32	chr6:33695600-33696600	Transcr. at gene 5' and 3'	Skeletal Muscle Male	skeletal muscle
33	chr6:33695600-33697200	Strong transcription	Brain Substantia Nigra	brain
34	chr6:33695600-33711800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr6:33695800-33696800	Enhancers	Right Atrium	heart
36	chr6:33695800-33697200	Enhancers	Spleen	Spleen
37	chr6:33696000-33698600	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr6:33696200-33696600	ZNF genes & repeats	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr6:33696200-33699200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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