Variant report

Variant	rs6551649
Chromosome Location	chr4:62609116-62609117
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10013153	0.84[EUR][1000 genomes]
rs11131341	0.80[MEX][hapmap]
rs11732081	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11732258	0.85[EUR][1000 genomes]
rs12644190	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12646006	0.82[EUR][1000 genomes]
rs12646895	1.00[CEU][hapmap];0.84[GIH][hapmap];0.83[EUR][1000 genomes]
rs12648947	0.88[EUR][1000 genomes]
rs13132632	0.85[EUR][1000 genomes]
rs13138257	0.85[EUR][1000 genomes]
rs2036199	0.80[MEX][hapmap]
rs2343575	0.87[EUR][1000 genomes]
rs2343576	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2343577	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2343578	0.88[EUR][1000 genomes]
rs2343579	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs2343580	0.87[EUR][1000 genomes]
rs28505735	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35015281	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35711461	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs36153269	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4241640	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4339245	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4351047	0.86[CEU][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4371644	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4458480	0.84[EUR][1000 genomes]
rs4495065	0.84[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4513598	0.90[EUR][1000 genomes]
rs4611958	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4639106	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4860100	0.84[EUR][1000 genomes]
rs4860102	0.81[EUR][1000 genomes]
rs4860422	0.80[MEX][hapmap]
rs4860426	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4860427	0.88[CEU][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4860429	0.87[CEU][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62306769	0.86[EUR][1000 genomes]
rs6551648	0.81[EUR][1000 genomes]
rs6551654	0.85[EUR][1000 genomes]
rs6843246	0.94[ASW][hapmap];0.88[CEU][hapmap];0.93[GIH][hapmap];0.87[LWK][hapmap];0.96[MEX][hapmap];0.93[TSI][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6848543	0.88[EUR][1000 genomes]
rs6852160	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6852161	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6855108	0.84[CEU][hapmap];0.88[LWK][hapmap];0.96[MEX][hapmap]
rs7376314	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7663116	0.95[EUR][1000 genomes]
rs7684797	0.89[EUR][1000 genomes]
rs7691557	0.87[EUR][1000 genomes]
rs7691558	0.84[EUR][1000 genomes]
rs7691739	0.87[EUR][1000 genomes]
rs7691805	0.85[EUR][1000 genomes]
rs7695664	0.81[EUR][1000 genomes]
rs7698860	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7699021	0.95[EUR][1000 genomes]
rs7699533	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9998958	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461377	chr4:62368762-62883431	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv594328	chr4:62368762-62883431	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:62594600-62609400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr4:62597200-62609400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr4:62607200-62609400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr4:62607800-62609400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr4:62607800-62609400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr4:62608000-62609400	Weak transcription	Fetal Stomach	stomach
7	chr4:62608200-62611000	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
8	chr4:62608200-62611800	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
9	chr4:62608200-62612800	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
10	chr4:62608400-62611000	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
11	chr4:62608600-62609800	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr4:62608800-62610400	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr4:62608800-62611000	ZNF genes & repeats	H9 Cell Line	embryonic stem cell
14	chr4:62609000-62610800	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
15	chr4:62609000-62612400	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell

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