Variant report

Variant	rs6535554
Chromosome Location	chr4:148630917-148630918
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10015717	0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1005871	0.90[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10519911	0.82[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[ASN][1000 genomes]
rs11099668	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11726957	0.80[ASN][1000 genomes]
rs12507247	0.98[ASN][1000 genomes]
rs12510847	0.85[ASN][1000 genomes]
rs12510915	0.82[ASN][1000 genomes]
rs13108782	0.99[ASN][1000 genomes]
rs13128620	0.80[ASN][1000 genomes]
rs17023732	1.00[TSI][hapmap]
rs17675572	0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2036498	0.90[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2036500	0.86[ASN][1000 genomes]
rs2036501	0.95[ASN][1000 genomes]
rs2357926	0.82[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2654937	0.82[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2654938	0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2654940	0.90[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2654941	0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2654948	0.95[ASN][1000 genomes]
rs2654949	0.90[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2718447	0.82[CHB][hapmap];0.97[CHD][hapmap];0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs2718448	0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2718449	0.92[ASN][1000 genomes]
rs2718452	0.88[ASN][1000 genomes]
rs2718453	0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2718454	0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2718455	0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2718457	0.88[ASN][1000 genomes]
rs2718458	0.93[ASN][1000 genomes]
rs2884383	0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs36052332	0.80[ASN][1000 genomes]
rs4835441	0.93[ASN][1000 genomes]
rs4835445	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4835446	0.80[ASN][1000 genomes]
rs56224422	0.80[ASN][1000 genomes]
rs57690385	0.95[ASN][1000 genomes]
rs60862021	0.81[ASN][1000 genomes]
rs6535552	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6535553	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6535555	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6810521	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6828566	0.94[ASN][1000 genomes]
rs6841745	0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6845224	0.90[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs6845592	0.90[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs6846220	0.90[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7655893	0.98[ASN][1000 genomes]
rs7660361	0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7664244	0.92[ASN][1000 genomes]
rs7666065	0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7666807	0.80[ASN][1000 genomes]
rs7672671	0.93[ASN][1000 genomes]
rs7675850	0.98[ASN][1000 genomes]
rs7678612	0.94[ASN][1000 genomes]
rs7687368	0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7690974	0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs884761	0.82[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs905607	0.89[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs924783	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9993863	0.85[ASN][1000 genomes]
rs9998065	0.95[ASN][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	nsv1028958	chr4:148377752-148793485	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv498083	chr4:148519825-148917583	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
3	nsv293162	chr4:148628710-148631612	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:148627000-148634200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr4:148629000-148631400	Enhancers	Placenta	Placenta
3	chr4:148629400-148631000	Weak transcription	GM12878-XiMat	blood
4	chr4:148629400-148634600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr4:148629800-148633800	Weak transcription	Adipose Nuclei	Adipose
6	chr4:148629800-148634400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr4:148629800-148635000	Weak transcription	NHDF-Ad	bronchial
8	chr4:148629800-148635000	Weak transcription	NHLF	lung
9	chr4:148629800-148635600	Weak transcription	Osteobl	bone
10	chr4:148630000-148634600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr4:148630200-148635400	Weak transcription	HMEC	breast
12	chr4:148630400-148631400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr4:148630600-148631200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr4:148630800-148636200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links