Variant report

Variant	rs1796227
Chromosome Location	chr7:66087019-66087020
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:66086058..66091828-chr7:66092043..66096410,8	K562	blood:
2	chr7:66086645..66090963-chr7:66091966..66094682,7	K562	blood:
3	chr7:66085871..66088222-chr7:66108390..66110154,2	K562	blood:

Variant related genes	Relation type
ENSG00000243335	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10950040	0.80[EUR][1000 genomes]
rs10950047	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11763224	0.86[EUR][1000 genomes]
rs11766583	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12666079	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12667394	1.00[ASN][1000 genomes]
rs12672427	0.80[EUR][1000 genomes]
rs1267814	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13311962	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1638724	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1638725	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1638728	1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1638732	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1638735	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1638738	0.83[EUR][1000 genomes]
rs1796212	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1796217	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1796218	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1796219	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1796222	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1796226	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1860471	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1862085	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1922722	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2052089	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2420612	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2533282	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2533283	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2533284	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2707851	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28425729	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28817617	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2901267	0.91[EUR][1000 genomes]
rs35459055	0.80[EUR][1000 genomes]
rs3735147	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs4718346	0.80[EUR][1000 genomes]
rs4718364	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4718385	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6460298	0.80[EUR][1000 genomes]
rs6460311	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6945896	0.80[EUR][1000 genomes]
rs6947441	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6950988	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6961853	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6966953	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6970767	0.88[EUR][1000 genomes]
rs6979167	0.89[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs73139927	0.91[EUR][1000 genomes]
rs73148689	0.83[EUR][1000 genomes]
rs73150604	0.82[EUR][1000 genomes]
rs73152714	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73377549	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73377594	0.91[EUR][1000 genomes]
rs7810213	0.82[EUR][1000 genomes]
rs801199	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs801210	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs801212	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs801213	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs964971	1.00[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[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:6)

SNP	Gene	Cis/trans	Tissue	Source
rs1796227	GS1-124K5.11	cis	Thyroid	GTEx
rs1796227	GS1-124K5.4	cis	Esophagus Mucosa	GTEx
rs1796227	GS1-124K5.4	cis	Stomach	GTEx
rs1796227	GTF2IRD1P1	cis	Thyroid	GTEx
rs1796227	RP4-756H11.3	cis	Heart Left Ventricle	GTEx
rs1796227	GS1-124K5.4	cis	Artery Aorta	GTEx

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:66084800-66087200	Weak transcription	K562	blood
2	chr7:66085000-66090800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr7:66085200-66090200	Weak transcription	HepG2	liver
4	chr7:66085600-66089800	Weak transcription	Placenta	Placenta
5	chr7:66086800-66092800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links