Variant report

Variant	rs2758866
Chromosome Location	chr6:39240161-39240162
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:39193484..39195491-chr6:39238843..39241224,2	K562	blood:
2	chr6:39238194..39240550-chr6:39241911..39243898,2	K562	blood:
3	chr6:39239173..39241787-chr6:39269864..39271484,2	MCF-7	breast:
4	chr6:39173237..39177206-chr6:39236026..39240576,5	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs1005995	0.82[ASN][1000 genomes]
rs1182864	0.89[ASN][1000 genomes]
rs12191604	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12191756	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12198547	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12198665	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2253582	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2395719	0.89[ASN][1000 genomes]
rs2395720	0.88[ASN][1000 genomes]
rs2758863	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2758864	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2758865	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2758867	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2758868	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2758869	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2758871	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2758872	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2758874	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2758906	0.80[EUR][1000 genomes]
rs2815019	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2815020	0.99[ASN][1000 genomes]
rs2815024	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2815025	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2815026	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2815027	0.93[ASN][1000 genomes]
rs2815028	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2815029	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2815030	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2815031	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2815032	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2815035	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2815036	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2815037	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2815038	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2815039	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2815040	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2815041	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2815042	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2815044	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2815045	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2815061	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34170020	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34343201	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4714233	0.86[ASN][1000 genomes]
rs7746595	0.86[ASN][1000 genomes]
rs9394580	0.89[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	nsv830644	chr6:39116530-39325980	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv1022974	chr6:39120271-39277553	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv830645	chr6:39227601-39408310	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39233600-39240200	Enhancers	Placenta	Placenta
2	chr6:39236000-39241200	Weak transcription	Colonic Mucosa	Colon
3	chr6:39236000-39241400	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr6:39236600-39241000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:39237200-39240200	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr6:39237800-39241200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:39238200-39241400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr6:39238400-39243200	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr6:39238600-39243000	Weak transcription	Spleen	Spleen
10	chr6:39239000-39241200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:39239400-39241200	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr6:39239400-39242600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr6:39239600-39242600	Enhancers	H1 Cell Line	embryonic stem cell
14	chr6:39239800-39240800	Enhancers	H9 Cell Line	embryonic stem cell
15	chr6:39239800-39241200	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr6:39239800-39242000	Enhancers	ES-I3 Cell Line	embryonic stem cell
17	chr6:39240000-39240800	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr6:39240000-39240800	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr6:39240000-39241800	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr6:39240000-39242200	Enhancers	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links