Variant report

Variant	rs6558974
Chromosome Location	chr8:5030090-5030091
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10086600	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10089761	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10102314	0.87[ASN][1000 genomes]
rs10866979	0.90[ASN][1000 genomes]
rs11136830	0.90[ASN][1000 genomes]
rs11776465	0.96[ASN][1000 genomes]
rs11776699	0.90[ASN][1000 genomes]
rs11785887	0.96[ASN][1000 genomes]
rs11985826	0.87[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs12544495	0.87[ASN][1000 genomes]
rs12545609	0.88[ASN][1000 genomes]
rs12547664	0.84[ASN][1000 genomes]
rs13248751	0.89[ASN][1000 genomes]
rs13253601	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13254213	0.88[ASN][1000 genomes]
rs13257156	0.90[ASN][1000 genomes]
rs13274407	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13276671	0.89[ASN][1000 genomes]
rs13279768	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13281229	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28690269	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28845835	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34655563	0.80[ASN][1000 genomes]
rs35047891	0.87[ASN][1000 genomes]
rs4130202	0.85[ASN][1000 genomes]
rs4394420	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4398942	0.89[ASN][1000 genomes]
rs4415343	0.91[ASN][1000 genomes]
rs4445246	0.87[ASN][1000 genomes]
rs4469475	0.90[ASN][1000 genomes]
rs4610773	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4615597	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4629891	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56265039	0.88[ASN][1000 genomes]
rs60747364	0.90[ASN][1000 genomes]
rs6558976	0.91[ASN][1000 genomes]
rs6981364	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6982689	0.87[ASN][1000 genomes]
rs6983804	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6984042	0.90[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs6984641	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6988886	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6989785	0.81[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs6989820	0.81[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs6994210	0.96[ASN][1000 genomes]
rs6995257	0.93[ASN][1000 genomes]
rs6995685	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6998734	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6998740	0.93[ASN][1000 genomes]
rs7000861	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7001380	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7003519	0.90[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs7004611	0.87[ASN][1000 genomes]
rs7004624	0.87[ASN][1000 genomes]
rs7005357	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7006470	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7011574	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7011604	0.87[ASN][1000 genomes]
rs7012448	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7012456	0.98[ASN][1000 genomes]
rs7013098	0.88[ASN][1000 genomes]
rs7014819	0.86[ASN][1000 genomes]
rs7014966	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7460158	0.88[ASN][1000 genomes]
rs7822175	0.83[ASN][1000 genomes]
rs7822176	0.87[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs7822294	0.85[ASN][1000 genomes]
rs7833925	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7838077	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7839924	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv609876	chr8:4494811-5092970	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1029480	chr8:4497596-5081032	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv498130	chr8:4532988-5176376	Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1031026	chr8:4771072-5054326	Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv889978	chr8:4853197-5460166	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1028846	chr8:4907673-5128665	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv1025394	chr8:4939429-5041417	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv889980	chr8:4940320-5112194	Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1033108	chr8:4957499-5067611	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv539406	chr8:4957499-5067611	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv1028032	chr8:4967369-5032325	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	nsv1030930	chr8:4974111-5044712	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	esv2761400	chr8:4990205-5044712	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
14	nsv831217	chr8:5007449-5210093	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:5026400-5030200	Enhancers	iPS-15b Cell Line	embryonic stem cell
2	chr8:5026600-5030400	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr8:5026600-5030400	Enhancers	Brain Germinal Matrix	brain
4	chr8:5026800-5030200	Enhancers	HUES6 Cell Line	embryonic stem cell
5	chr8:5027600-5030600	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr8:5028800-5030400	Enhancers	Fetal Brain Male	brain
7	chr8:5028800-5030800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr8:5029400-5030200	Active TSS	Brain Anterior Caudate	brain
9	chr8:5029400-5030200	Enhancers	Brain Inferior Temporal Lobe	brain
10	chr8:5029400-5030400	Active TSS	Stomach Smooth Muscle	stomach
11	chr8:5029400-5036600	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr8:5029600-5030200	Enhancers	Brain Angular Gyrus	brain
13	chr8:5029600-5030600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr8:5029800-5030400	Enhancers	Brain Cingulate Gyrus	brain
15	chr8:5029800-5030800	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr8:5030000-5030200	Enhancers	Brain Hippocampus Middle	brain
17	chr8:5030000-5030200	Enhancers	Fetal Brain Female	brain
18	chr8:5030000-5030400	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
19	chr8:5030000-5030400	Enhancers	Brain Substantia Nigra	brain
20	chr8:5030000-5037600	Weak transcription	H1 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links