Variant report

Variant	rs61735385
Chromosome Location	chr15:53081800-53081801
allele	C/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	TAF1	chr15:53081455-53082342	HepG2	liver:	n/a	n/a
2	MAX	chr15:53081564-53083062	MCF-7	breast:	n/a	chr15:53082734-53082745
3	TAF1	chr15:53081744-53082312	HepG2	liver:	n/a	n/a
4	POLR2A	chr15:53081468-53083469	H1-neurons	neurons:	n/a	n/a
5	SUZ12	chr15:53078589-53082336	H1-hESC	embryonic stem cell:	n/a	n/a
6	POLR2A	chr15:53081618-53082970	HepG2	liver:	n/a	n/a
7	HA-E2F1	chr15:53081797-53083000	MCF-7	breast:	n/a	chr15:53082631-53082640 chr15:53082612-53082621 chr15:53082625-53082634
8	YY1	chr15:53081690-53082916	HepG2	liver:	n/a	chr15:53082450-53082461 chr15:53082628-53082639 chr15:53082631-53082640 chr15:53082487-53082501 chr15:53082625-53082639 chr15:53082468-53082479 chr15:53082628-53082637 chr15:53082471-53082485
9	MAX	chr15:53081725-53083169	MCF-7	breast:	n/a	chr15:53082734-53082745
10	MAX	chr15:53081737-53083149	A549	lung:	n/a	chr15:53082734-53082745
11	CTBP2	chr15:53079913-53083729	H1-hESC	embryonic stem cell:	n/a	n/a
12	POLR2A	chr15:53081582-53083054	H1-neurons	neurons:	n/a	n/a
13	MAX	chr15:53081357-53083043	HepG2	liver:	n/a	chr15:53082734-53082745
14	MAX	chr15:53081242-53083070	HepG2	liver:	n/a	chr15:53082734-53082745

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:53072756..53074429-chr15:53080987..53082654,2	MCF-7	breast:
2	chr15:53072465..53075963-chr15:53080706..53083147,3	MCF-7	breast:

Variant related genes	Relation type
ONECUT1	TF binding region
ENSG00000169856	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1357	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16965171	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs16965179	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55781920	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62023486	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62023487	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62023488	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62023489	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62023490	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62023492	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62023493	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8025128	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471245	chr15:52607262-53187165	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv1041421	chr15:52661342-53148286	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv457142	chr15:53041887-53091896	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
4	nsv569427	chr15:53041887-53091896	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
5	nsv1046970	chr15:53065114-53142386	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	n/a
6	nsv569428	chr15:53069874-53140045	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:149 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53075400-53082000	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
2	chr15:53075600-53082000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
3	chr15:53075600-53083600	Bivalent Enhancer	Fetal Brain Male	brain
4	chr15:53075800-53082200	Bivalent/Poised TSS	Pancreatic Islets	Pancreatic Islet
5	chr15:53076400-53083800	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
6	chr15:53076600-53081800	Bivalent Enhancer	Spleen	Spleen
7	chr15:53077800-53081800	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr15:53079200-53081800	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
9	chr15:53079800-53081800	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
10	chr15:53080000-53081800	Bivalent Enhancer	Primary T helper naive cells from peripheral blood	blood
11	chr15:53080000-53081800	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr15:53080000-53082000	Bivalent Enhancer	Primary B cells from peripheral blood	blood
13	chr15:53080000-53082400	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr15:53080200-53081800	Bivalent Enhancer	Brain Dorsolateral Prefrontal Cortex	brain
15	chr15:53080200-53082000	Bivalent Enhancer	Primary T helper 17 cells PMA-I stimulated	--
16	chr15:53080400-53081800	Bivalent Enhancer	Esophagus	oesophagus
17	chr15:53080400-53081800	Bivalent Enhancer	Left Ventricle	heart
18	chr15:53080400-53082000	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
19	chr15:53080600-53081800	Bivalent Enhancer	Brain Anterior Caudate	brain
20	chr15:53080600-53082000	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
21	chr15:53080600-53082000	Bivalent Enhancer	Lung	lung
22	chr15:53080600-53083800	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
23	chr15:53080800-53081800	Bivalent Enhancer	Ovary	ovary
24	chr15:53080800-53081800	Bivalent Enhancer	Placenta Amnion	Placenta Amnion
25	chr15:53080800-53082000	Bivalent Enhancer	Primary T killer memory cells from peripheral blood	blood
26	chr15:53080800-53082000	Bivalent Enhancer	Fetal Muscle Leg	muscle
27	chr15:53080800-53082400	Bivalent Enhancer	Fetal Heart	heart
28	chr15:53081000-53081800	Flanking Active TSS	Right Ventricle	heart
29	chr15:53081000-53082000	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 2	blood
30	chr15:53081000-53082000	Bivalent Enhancer	Fetal Stomach	stomach
31	chr15:53081000-53082200	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
32	chr15:53081000-53082400	Flanking Bivalent TSS/Enh	Skeletal Muscle Female	skeletal muscle
33	chr15:53081000-53083000	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
34	chr15:53081200-53081800	Bivalent Enhancer	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr15:53081200-53081800	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
36	chr15:53081200-53081800	Bivalent Enhancer	Rectal Mucosa Donor 31	rectum
37	chr15:53081200-53081800	Enhancers	Right Atrium	heart
38	chr15:53081200-53081800	Bivalent Enhancer	Monocytes-CD14+_RO01746	blood
39	chr15:53081200-53082000	Bivalent Enhancer	Stomach Mucosa	stomach
40	chr15:53081200-53082200	Bivalent Enhancer	Placenta	Placenta
41	chr15:53081200-53082400	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
42	chr15:53081200-53083000	Bivalent/Poised TSS	Primary T cells from cord blood	blood
43	chr15:53081200-53083200	Active TSS	HepG2	liver
44	chr15:53081200-53083800	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
45	chr15:53081200-53083800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
46	chr15:53081400-53081800	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell
47	chr15:53081400-53081800	Bivalent Enhancer	Breast Myoepithelial Primary Cells	Breast
48	chr15:53081400-53081800	Bivalent Enhancer	Primary mononuclear cells fromperipheralblood	Blood
49	chr15:53081400-53081800	Bivalent Enhancer	HMEC	breast
50	chr15:53081400-53082000	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links