Variant report

Variant	rs16890271
Chromosome Location	chr6:25265990-25265991
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr6:25265959-25266216	LNCaP	prostate:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
2	RAD21	chr6:25265795-25266417	MCF-7	breast:	n/a	chr6:25266094-25266106 chr6:25266089-25266108
3	CTCF	chr6:25265965-25266216	Lung_OC	lung:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
4	CTCF	chr6:25265947-25266241	K562	blood:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
5	RAD21	chr6:25265908-25266329	GM12878	blood:	n/a	chr6:25266094-25266106 chr6:25266089-25266108
6	CTCF	chr6:25265876-25266261	K562	blood:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
7	RAD21	chr6:25265801-25266292	H1-hESC	embryonic stem cell:	n/a	chr6:25266094-25266106 chr6:25266089-25266108
8	SMC3	chr6:25265931-25266253	K562	blood:	n/a	chr6:25266090-25266104
9	RAD21	chr6:25265821-25266427	A549	lung:	n/a	chr6:25266094-25266106 chr6:25266089-25266108
10	CTCF	chr6:25265948-25266228	Pancreas_OC	pancreas:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
11	CTCF	chr6:25265934-25266245	HUVEC	blood vessel:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
12	MAFK	chr6:25265967-25266814	HepG2	liver:	n/a	chr6:25266644-25266653 chr6:25266642-25266658 chr6:25266643-25266657 chr6:25266647-25266656 chr6:25266640-25266660 chr6:25266646-25266656
13	CTCF	chr6:25265921-25266253	Spleen_OC	spleen:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
14	CTCF	chr6:25265778-25266515	HCT-116	colon:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
15	CTCF	chr6:25265947-25266243	GM12878	blood:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
16	STAT3	chr6:25265938-25266238	MCF10A-Er-Src	breast:	n/a	n/a
17	RAD21	chr6:25265802-25266408	MCF-7	breast:	n/a	chr6:25266094-25266106 chr6:25266089-25266108
18	CTCF	chr6:25265935-25266236	MCF-7	breast:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
19	RAD21	chr6:25265796-25266346	HepG2	liver:	n/a	chr6:25266094-25266106 chr6:25266089-25266108
20	CTCF	chr6:25265864-25266311	GM12878	blood:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
21	CTCF	chr6:25265929-25266243	Medullo	brain:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
22	CTCF	chr6:25265922-25266216	ECC-1	luminal epithelium:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
23	CTCF	chr6:25265980-25266130	HVMF	connective:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
24	E2F4	chr6:25265962-25266232	MCF10A-Er-Src	breast:	n/a	n/a
25	RAD21	chr6:25265903-25266282	HepG2	liver:	n/a	chr6:25266094-25266106 chr6:25266089-25266108
26	CTCF	chr6:25265980-25266130	NHEK	skin:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
27	CTCF	chr6:25265768-25266476	SK-N-SH	brain:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
28	CTCF	chr6:25265897-25266260	A549	lung:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
29	RAD21	chr6:25265847-25266447	IMR90	lung:	n/a	chr6:25266094-25266106 chr6:25266089-25266108
30	RAD21	chr6:25265903-25266383	ECC-1	luminal epithelium:	n/a	chr6:25266094-25266106 chr6:25266089-25266108
31	CTCF	chr6:25265830-25266394	K562	blood:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
32	CTCF	chr6:25265940-25266229	Kidney_OC	kidney:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
33	CTCF	chr6:25265955-25266227	Hela-S3	cervix:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
34	CTCF	chr6:25265980-25266130	GM12873	blood:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
35	CTCF	chr6:25265967-25266212	SK-N-SH_RA	brain:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
36	CTCF	chr6:25265949-25266225	GM13977	blood:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
37	CTCF	chr6:25265876-25266281	H1-hESC	embryonic stem cell:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
38	CTCF	chr6:25265939-25266225	GM10266	blood:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
39	RAD21	chr6:25265821-25266349	SK-N-SH_RA	brain:	n/a	chr6:25266094-25266106 chr6:25266089-25266108
40	CTCF	chr6:25265980-25266130	HFF	foreskin:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
41	RAD21	chr6:25265787-25266360	HCT-116	colon:	n/a	chr6:25266094-25266106 chr6:25266089-25266108
42	CTCF	chr6:25265724-25266588	A549	lung:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
43	GATA3	chr6:25265906-25266214	T-47D	breast:	n/a	n/a
44	RAD21	chr6:25265952-25266368	A549	lung:	n/a	chr6:25266094-25266106 chr6:25266089-25266108
45	MAFF	chr6:25265943-25266233	HepG2	liver:	n/a	n/a
46	CTCF	chr6:25265920-25266249	Gliobla	brain:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
47	CTCF	chr6:25265922-25266255	T-47D	breast:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
48	CTCF	chr6:25265980-25266130	GM12866	blood:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
49	CTCF	chr6:25265884-25266349	K562	blood:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104
50	CTCF	chr6:25265919-25266229	HepG2	liver:	n/a	chr6:25266090-25266111 chr6:25266089-25266105 chr6:25266088-25266106 chr6:25266091-25266104

No.	Distal block	Cell Line	Cell type
1	chr6:25265932..25266579-chr6:25556462..25557180,3	MCF-7	breast:
2	chr6:25264842..25266503-chr6:25491535..25493779,2	MCF-7	breast:
3	chr6:25265692..25268532-chr6:25269921..25272055,2	MCF-7	breast:
4	chr6:25265953..25268779-chr6:25278296..25280757,3	MCF-7	breast:
5	chr6:25265792..25266348-chr6:25490241..25490927,2	K562	blood:
6	chr6:25265686..25266899-chr6:25490019..25490918,5	MCF-7	breast:
7	chr6:25223636..25224166-chr6:25265963..25266626,2	MCF-7	breast:
8	chr6:25265655..25266620-chr6:25556304..25557308,7	K562	blood:

Variant related genes	Relation type
ENSG00000235733	TF binding region
ENSG00000079691	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs16890281	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1815097	1.00[ASN][1000 genomes]
rs2690043	1.00[ASN][1000 genomes]
rs2690044	1.00[ASN][1000 genomes]
rs2690045	1.00[ASN][1000 genomes]
rs2690046	1.00[ASN][1000 genomes]
rs2690048	1.00[ASN][1000 genomes]
rs2690049	1.00[ASN][1000 genomes]
rs2690050	1.00[ASN][1000 genomes]
rs2690051	1.00[ASN][1000 genomes]
rs2690052	1.00[ASN][1000 genomes]
rs2690055	1.00[ASN][1000 genomes]
rs2690057	1.00[ASN][1000 genomes]
rs2690058	1.00[ASN][1000 genomes]
rs2690063	1.00[ASN][1000 genomes]
rs2690066	1.00[ASN][1000 genomes]
rs2690069	1.00[ASN][1000 genomes]
rs2690102	1.00[ASN][1000 genomes]
rs2690104	1.00[ASN][1000 genomes]
rs2744255	1.00[ASN][1000 genomes]
rs2744259	1.00[ASN][1000 genomes]
rs2744260	1.00[ASN][1000 genomes]
rs2744263	1.00[ASN][1000 genomes]
rs2744265	1.00[ASN][1000 genomes]
rs2744266	1.00[ASN][1000 genomes]
rs2744275	1.00[ASN][1000 genomes]
rs2744276	1.00[ASN][1000 genomes]
rs2744277	1.00[ASN][1000 genomes]
rs2744278	1.00[ASN][1000 genomes]
rs2744279	1.00[ASN][1000 genomes]
rs2744280	1.00[ASN][1000 genomes]
rs2744282	1.00[ASN][1000 genomes]
rs2744284	1.00[ASN][1000 genomes]
rs2744285	1.00[ASN][1000 genomes]
rs2744286	1.00[ASN][1000 genomes]
rs7743508	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7743997	1.00[ASN][1000 genomes]
rs7767189	1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs940405	1.00[ASN][1000 genomes]
rs9688905	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023989	chr6:24930362-25285679	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv1025694	chr6:25136860-25309450	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv1020774	chr6:25154152-25285679	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv538161	chr6:25154152-25285679	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv883483	chr6:25200842-25272435	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv883484	chr6:25237288-25303100	Active TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv883485	chr6:25259137-25437986	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv883486	chr6:25260434-25422369	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25264200-25266200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr6:25264600-25266000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr6:25264600-25266200	Weak transcription	Osteobl	bone
4	chr6:25265800-25266000	Enhancers	Hela-S3	cervix
5	chr6:25265800-25266000	Enhancers	NHLF	lung
6	chr6:25265800-25266200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:25265800-25266200	Enhancers	Primary T cells from cord blood	blood
8	chr6:25265800-25266200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
9	chr6:25265800-25266400	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr6:25265800-25266400	Enhancers	Adipose Nuclei	Adipose
11	chr6:25265800-25267200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr6:25265800-25267400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr6:25265800-25267400	Enhancers	NHDF-Ad	bronchial

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