Variant report

Variant	rs55763666
Chromosome Location	chr15:51090092-51090093
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	RAD21	chr15:51090031-51090599	MCF-7	breast:	n/a	n/a
2	NR2F2	chr15:51090024-51090608	MCF-7	breast:	n/a	n/a
3	GATA3	chr15:51090002-51091646	MCF-7	breast:	n/a	chr15:51090805-51090815
4	NR2F2	chr15:51090047-51091386	MCF-7	breast:	n/a	n/a
5	HDAC2	chr15:51090076-51090552	MCF-7	breast:	n/a	chr15:51090463-51090477 chr15:51090401-51090415 chr15:51090398-51090412 chr15:51090400-51090414 chr15:51090404-51090418 chr15:51090403-51090417 chr15:51090402-51090416 chr15:51090407-51090421 chr15:51090462-51090476
6	JUND	chr15:51090052-51091411	MCF-7	breast:	n/a	n/a
7	REST	chr15:51090059-51090785	MCF-7	breast:	n/a	n/a
8	REST	chr15:51090068-51090493	MCF-7	breast:	n/a	n/a
9	ELF1	chr15:51090029-51090729	MCF-7	breast:	n/a	n/a
10	GATA3	chr15:51090068-51091512	MCF-7	breast:	n/a	chr15:51090805-51090815
11	MAX	chr15:51089999-51090706	MCF-7	breast:	n/a	n/a
12	CEBPB	chr15:51090092-51090657	MCF-7	breast:	n/a	n/a
13	SIN3AK20	chr15:51090005-51091362	MCF-7	breast:	n/a	n/a
14	FOXM1	chr15:51090086-51091789	MCF-7	breast:	n/a	chr15:51090559-51090567
15	SIN3AK20	chr15:51089975-51091563	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:51083211..51087261-chr15:51087532..51090501,5	MCF-7	breast:
2	chr15:51056515..51059362-chr15:51088829..51092887,6	MCF-7	breast:
3	chr15:51056750..51061263-chr15:51087602..51092500,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000241130	TF binding region
ENSG00000138600	Chromatin interaction

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs16963979	1.00[AMR][1000 genomes]
rs28865017	1.00[AMR][1000 genomes]
rs55683982	1.00[AMR][1000 genomes]
rs55735813	1.00[AMR][1000 genomes]
rs55742119	1.00[AMR][1000 genomes]
rs55912100	1.00[AMR][1000 genomes]
rs55920356	1.00[AMR][1000 genomes]
rs55940433	1.00[AMR][1000 genomes]
rs55973448	1.00[AMR][1000 genomes]
rs56010315	1.00[AMR][1000 genomes]
rs56017509	1.00[AMR][1000 genomes]
rs56049414	1.00[AMR][1000 genomes]
rs56056949	1.00[AMR][1000 genomes]
rs56121717	1.00[AMR][1000 genomes]
rs56222335	1.00[AMR][1000 genomes]
rs56273151	1.00[AMR][1000 genomes]
rs56283133	1.00[AMR][1000 genomes]
rs56289716	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56374503	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56813592	1.00[AMR][1000 genomes]
rs57221782	1.00[AMR][1000 genomes]
rs57499524	1.00[AMR][1000 genomes]
rs57949904	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58651255	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59364110	1.00[AMR][1000 genomes]
rs59853681	0.83[AFR][1000 genomes]
rs59865784	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60037205	1.00[AMR][1000 genomes]
rs60253924	1.00[AMR][1000 genomes]
rs60700183	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60775199	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61106666	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61698311	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6493467	1.00[AMR][1000 genomes]
rs7174066	1.00[AMR][1000 genomes]
rs7175547	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74012820	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74012821	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74013114	1.00[AMR][1000 genomes]
rs74013115	1.00[AMR][1000 genomes]
rs74015214	1.00[AMR][1000 genomes]
rs74015215	1.00[AMR][1000 genomes]
rs74015226	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74015228	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74015229	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74015230	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74015232	1.00[AMR][1000 genomes]
rs74015235	1.00[AMR][1000 genomes]
rs74015236	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:27 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1053966	chr15:50715572-51133186	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
2	nsv542383	chr15:50715572-51133186	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
3	nsv1043805	chr15:50715572-51208891	Genic enhancers Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
4	nsv542384	chr15:50715572-51208891	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
5	nsv1047443	chr15:50744781-51647023	Strong transcription Active TSS Weak transcription Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
6	nsv1051990	chr15:50745814-51133186	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
7	nsv457134	chr15:50770868-51184583	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
8	nsv471242	chr15:50770868-51184583	Genic enhancers ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
9	nsv569396	chr15:50770868-51184583	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
10	nsv457135	chr15:50770868-51189707	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
11	nsv569397	chr15:50770868-51189707	Strong transcription Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
12	nsv1048621	chr15:50775451-51115535	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
13	nsv1047039	chr15:50782070-51187804	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
14	nsv542385	chr15:50782070-51187804	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
15	nsv457136	chr15:50789125-51294995	Strong transcription ZNF genes & repeats Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
16	nsv569398	chr15:50789125-51294995	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
17	nsv1036081	chr15:50818569-51097229	Strong transcription Active TSS Transcr. at gene 5' and 3' Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
18	nsv1055112	chr15:50822035-51133186	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
19	nsv1042372	chr15:50846461-51208891	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
20	nsv542386	chr15:50846461-51208891	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
21	nsv569399	chr15:50874964-51562198	Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
22	nsv569400	chr15:50874964-51767265	ZNF genes & repeats Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
23	nsv904212	chr15:50979738-51132170	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
24	nsv904213	chr15:51011402-51119731	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
25	nsv457137	chr15:51019117-51117524	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
26	nsv569402	chr15:51019117-51117524	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
27	nsv529339	chr15:51048579-51270372	Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:51079200-51091000	Weak transcription	HepG2	liver
2	chr15:51080400-51090200	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr15:51082600-51090800	Weak transcription	K562	blood
4	chr15:51084400-51090200	Weak transcription	Fetal Intestine Large	intestine
5	chr15:51086800-51090800	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr15:51087000-51090800	Weak transcription	Duodenum Mucosa	Duodenum
7	chr15:51087000-51090800	Weak transcription	Fetal Kidney	kidney
8	chr15:51088000-51090800	Weak transcription	Colonic Mucosa	Colon
9	chr15:51089000-51091200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr15:51089200-51091800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr15:51089400-51091200	Enhancers	Placenta	Placenta
12	chr15:51089400-51091400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr15:51089600-51091200	Enhancers	HMEC	breast
14	chr15:51089800-51091000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr15:51089800-51091400	Enhancers	NHEK	skin
16	chr15:51090000-51091400	Enhancers	Stomach Mucosa	stomach
17	chr15:51090000-51092200	Enhancers	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links