Variant report

Variant	rs10793590
Chromosome Location	chr10:45651372-45651373
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:47)
CpG islands
(count:0)
Chromatin interactive
region (count:1)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:47 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr10:45651346-45651507	HepG2	liver:	n/a	n/a
2	CTCF	chr10:45651333-45651518	HepG2	liver:	n/a	n/a
3	RAD21	chr10:45651249-45651544	HepG2	liver:	n/a	n/a
4	CTCF	chr10:45651354-45651548	A549	lung:	n/a	n/a
5	RAD21	chr10:45651319-45651489	K562	blood:	n/a	n/a
6	RAD21	chr10:45651291-45651491	K562	blood:	n/a	n/a
7	CTCF	chr10:45651360-45651510	K562	blood:	n/a	n/a
8	CTCF	chr10:45651360-45651510	SK-N-SH_RA	brain:	n/a	n/a
9	CTCF	chr10:45651340-45651490	GM12874	blood:	n/a	n/a
10	CTCF	chr10:45651360-45651510	HepG2	liver:	n/a	n/a
11	CTCFL	chr10:45651361-45651459	K562	blood:	n/a	n/a
12	CTCF	chr10:45651300-45651450	GM12865	blood:	n/a	n/a
13	CTCF	chr10:45651340-45651490	Caco-2	colon:	n/a	n/a
14	CTCF	chr10:45651360-45651510	GM12873	blood:	n/a	n/a
15	CTCF	chr10:45651355-45651499	MCF-7	breast:	n/a	n/a
16	CTCF	chr10:45651340-45651536	Gliobla	brain:	n/a	n/a
17	ZNF143	chr10:45651274-45651595	K562	blood:	n/a	n/a
18	CTCF	chr10:45651253-45651601	K562	blood:	n/a	n/a
19	CTCF	chr10:45651320-45651470	GM12865	blood:	n/a	n/a
20	CTCF	chr10:45651320-45651470	GM12864	blood:	n/a	n/a
21	CTCF	chr10:45651340-45651490	GM12871	blood:	n/a	n/a
22	CTCF	chr10:45651340-45651490	GM12867	blood:	n/a	n/a
23	CTCF	chr10:45651320-45651470	HEK293	kidney:	n/a	n/a
24	CTCF	chr10:45651320-45651470	Caco-2	colon:	n/a	n/a
25	CTCF	chr10:45651320-45651470	K562	blood:	n/a	n/a
26	CTCF	chr10:45651340-45651490	GM12873	blood:	n/a	n/a
27	CTCF	chr10:45651238-45651627	K562	blood:	n/a	n/a
28	CTCF	chr10:45651300-45651450	GM12874	blood:	n/a	n/a
29	CTCF	chr10:45651300-45651450	GM12864	blood:	n/a	n/a
30	RAD21	chr10:45651198-45651619	H1-hESC	embryonic stem cell:	n/a	n/a
31	CTCF	chr10:45651360-45651510	HCT-116	colon:	n/a	n/a
32	CTCF	chr10:45651359-45651525	H1-hESC	embryonic stem cell:	n/a	n/a
33	CTCF	chr10:45651321-45651542	K562	blood:	n/a	n/a
34	ZNF143	chr10:45651268-45651592	H1-hESC	embryonic stem cell:	n/a	n/a
35	CTCF	chr10:45651360-45651510	Hela-S3	cervix:	n/a	n/a
36	CTCF	chr10:45651280-45651430	GM12870	blood:	n/a	n/a
37	HCFC1	chr10:45651150-45651517	K562	blood:	n/a	n/a
38	CTCF	chr10:45651340-45651490	HepG2	liver:	n/a	n/a
39	RCOR1	chr10:45651271-45651464	K562	blood:	n/a	n/a
40	CTCF	chr10:45651340-45651490	GM12878	blood:	n/a	n/a
41	CTCF	chr10:45651268-45651578	K562	blood:	n/a	n/a
42	CTCF	chr10:45651320-45651470	GM12875	blood:	n/a	n/a
43	CTCF	chr10:45651360-45651510	A549	lung:	n/a	n/a
44	CTCF	chr10:45651340-45651490	SK-N-SH_RA	brain:	n/a	n/a
45	CTCF	chr10:45651185-45651657	K562	blood:	n/a	n/a
46	CTCF	chr10:45651340-45651490	GM12869	blood:	n/a	n/a
47	CTCF	chr10:45651240-45651390	HCT-116	colon:	n/a	n/a

No data

(count:1 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:45649769..45651449-chr10:45653696..45655206,2	MCF-7	breast:

No data

Variant related genes	Relation type
ANKRD54P1	TF binding region
ANKRD30BP3	TF binding region

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10047314	0.94[EUR][1000 genomes]
rs10736834	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10751374	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10751375	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10751376	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10793589	0.95[EUR][1000 genomes]
rs11239367	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11239368	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1890738	0.96[EUR][1000 genomes]
rs1977765	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1977766	0.98[EUR][1000 genomes]
rs1988087	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2311743	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2311744	0.88[EUR][1000 genomes]
rs2871855	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap]
rs3780893	0.98[EUR][1000 genomes]
rs3842994	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3842995	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3844164	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3851258	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs3851259	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3851260	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3851261	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3851262	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs3862880	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3862881	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3862882	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3862883	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3915591	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4068564	0.93[EUR][1000 genomes]
rs4256929	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4262682	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4559641	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7478624	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831848	chr10:45490176-45667670	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
2	esv2750897	chr10:45550145-45820136	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
3	nsv947903	chr10:45598715-45657182	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv895104	chr10:45636867-45715369	Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
5	nsv895105	chr10:45636867-45928822	Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:45650400-45654600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr10:45650400-45655200	Weak transcription	HMEC	breast
3	chr10:45650400-45655200	Weak transcription	NHEK	skin
4	chr10:45650400-45655600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr10:45650600-45656000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr10:45650800-45651800	Enhancers	K562	blood
7	chr10:45651200-45651600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links