Variant report

Variant	rs28400868
Chromosome Location	chr6:28785894-28785895
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28774872..28779186-chr6:28780865..28786550,9	K562	blood:
2	chr6:28722382..28724843-chr6:28784005..28786428,2	K562	blood:
3	chr6:28772556..28774593-chr6:28785044..28786627,2	K562	blood:
4	chr6:28722382..28725655-chr6:28783034..28786428,3	K562	blood:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10484543	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs184094	0.80[AMR][1000 genomes]
rs209177	0.82[AMR][1000 genomes]
rs2148007	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2269553	0.85[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28381660	0.87[AMR][1000 genomes]
rs28381661	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28381663	0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28381666	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28400869	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28400870	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs28743260	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4484511	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6909419	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs743847	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7763940	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7776376	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9257150	0.81[AMR][1000 genomes]
rs9257157	0.81[AMR][1000 genomes]
rs9257172	0.81[AMR][1000 genomes]
rs9257175	0.80[AMR][1000 genomes]
rs9257186	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9257269	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9257270	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9257274	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9257280	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9257281	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs929042	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9348814	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9368576	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9378107	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9378149	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9393932	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9393933	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9404976	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][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	nsv534089	chr6:28636972-28841640	Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv883517	chr6:28751727-28802149	Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28784200-28786000	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
2	chr6:28784200-28786200	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
3	chr6:28784400-28786000	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
4	chr6:28784400-28786000	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr6:28784400-28786000	Active TSS	A549	lung
6	chr6:28784600-28786000	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
7	chr6:28785000-28786000	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
8	chr6:28785400-28786000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
9	chr6:28785600-28786000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr6:28785800-28786000	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
11	chr6:28785800-28786000	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr6:28785800-28786200	Flanking Active TSS	K562	blood

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