Variant report

Variant	rs28817617
Chromosome Location	chr7:66077355-66077356
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10950047	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11766583	0.87[EUR][1000 genomes]
rs12666079	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12667394	0.88[ASN][1000 genomes]
rs1267814	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13311962	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1638724	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1638725	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1638728	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1638732	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1638735	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1796212	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1796217	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1796218	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1796219	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1796222	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1796226	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1796227	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1860471	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1922722	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2052089	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2420612	0.82[EUR][1000 genomes]
rs2533282	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2533283	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2533284	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2707851	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28425729	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2901267	0.84[EUR][1000 genomes]
rs4718364	0.82[EUR][1000 genomes]
rs4718385	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6460311	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6947441	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6961853	0.82[EUR][1000 genomes]
rs6966953	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6970767	0.81[EUR][1000 genomes]
rs6979167	0.84[EUR][1000 genomes]
rs73139927	0.85[EUR][1000 genomes]
rs73152714	0.82[EUR][1000 genomes]
rs73377549	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73377594	0.84[EUR][1000 genomes]
rs801199	0.88[EUR][1000 genomes]
rs801210	0.88[EUR][1000 genomes]
rs801212	0.88[EUR][1000 genomes]
rs801213	0.88[EUR][1000 genomes]
rs964971	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532124	chr7:65371521-66234730	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	125 gene(s)	inside rSNPs	diseases
2	nsv1026559	chr7:65617368-66370805	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	116 gene(s)	inside rSNPs	diseases
3	nsv1035107	chr7:65814901-66114919	Genic enhancers Strong transcription ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
4	nsv538909	chr7:65814901-66114919	Strong transcription Weak transcription Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs28817617	RNU6-96P	cis	Thyroid	GTEx
rs28817617	GS1-124K5.11	cis	Thyroid	GTEx
rs28817617	GTF2IRD1P1	cis	Thyroid	GTEx

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:66072400-66084200	Weak transcription	K562	blood
2	chr7:66076800-66082200	Weak transcription	HepG2	liver
3	chr7:66077200-66078000	Enhancers	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links