Variant report

Variant	rs7163359
Chromosome Location	chr15:51915805-51915806
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	MAFK	chr15:51915096-51916196	Hela-S3	cervix:	n/a	n/a
2	FOSL2	chr15:51915201-51916165	A549	lung:	n/a	chr15:51915670-51915680
3	RCOR1	chr15:51914095-51916114	Hela-S3	cervix:	n/a	n/a
4	TCF12	chr15:51914028-51916386	A549	lung:	n/a	n/a
5	TBL1XR1	chr15:51915433-51915971	K562	blood:	n/a	n/a
6	MAX	chr15:51913936-51916258	MCF-7	breast:	n/a	chr15:51915320-51915330
7	SMC3	chr15:51914823-51916092	Hela-S3	cervix:	n/a	n/a
8	MAX	chr15:51914103-51916109	NB4	blood:	n/a	chr15:51915320-51915330
9	GATA2	chr15:51915637-51916083	K562	blood:	n/a	n/a
10	RELA	chr15:51914039-51916101	GM18951	blood:	n/a	chr15:51915475-51915484 chr15:51915475-51915484
11	CEBPB	chr15:51914722-51916072	Hela-S3	cervix:	n/a	chr15:51915726-51915738
12	POLR2A	chr15:51914011-51916065	NB4	blood:	n/a	n/a
13	FOXA2	chr15:51915664-51916167	A549	lung:	n/a	chr15:51916125-51916137
14	CEBPB	chr15:51915734-51916148	K562	blood:	n/a	n/a
15	MAX	chr15:51913959-51915806	A549	lung:	n/a	chr15:51915320-51915330
16	ZNF143	chr15:51914856-51916366	K562	blood:	n/a	chr15:51914936-51914946 chr15:51915840-51915859
17	USF2	chr15:51915366-51915976	Hela-S3	cervix:	n/a	n/a
18	SP1	chr15:51914694-51916225	A549	lung:	n/a	chr15:51915322-51915332 chr15:51915322-51915331 chr15:51915318-51915332 chr15:51915323-51915332 chr15:51915321-51915333 chr15:51915321-51915333
19	CEBPD	chr15:51915609-51916162	K562	blood:	n/a	n/a
20	RCOR1	chr15:51914037-51916311	K562	blood:	n/a	n/a
21	NR2F2	chr15:51915625-51916071	K562	blood:	n/a	n/a
22	MAX	chr15:51914577-51916048	K562	blood:	n/a	chr15:51915320-51915330
23	TEAD4	chr15:51915367-51916142	K562	blood:	n/a	n/a
24	MAFK	chr15:51915561-51916139	K562	blood:	n/a	n/a
25	ARID3A	chr15:51915628-51916287	K562	blood:	n/a	n/a
26	MAZ	chr15:51914034-51916036	IMR90	lung:	n/a	chr15:51915320-51915330
27	SPI1	chr15:51915575-51916167	HL-60	blood:	n/a	chr15:51915939-51915946
28	SIN3AK20	chr15:51913825-51916329	MCF-7	breast:	n/a	n/a
29	GATA3	chr15:51913999-51916340	MCF-7	breast:	n/a	chr15:51915169-51915178
30	MYC	chr15:51914005-51916111	K562	blood:	n/a	chr15:51915320-51915330
31	SPI1	chr15:51915715-51916057	HL-60	blood:	n/a	chr15:51915939-51915946
32	TEAD4	chr15:51913941-51916308	K562	blood:	n/a	n/a
33	CEBPB	chr15:51915238-51915890	GM12878	blood:	n/a	chr15:51915726-51915738
34	MYC	chr15:51914075-51916225	NB4	blood:	n/a	chr15:51915320-51915330
35	RCOR1	chr15:51914624-51916219	K562	blood:	n/a	n/a
36	POLR2A	chr15:51915707-51915860	Hela-S3	cervix:	n/a	n/a
37	EGR1	chr15:51915715-51916127	K562	blood:	n/a	chr15:51916063-51916078
38	IRF1	chr15:51915545-51916058	K562	blood:	n/a	n/a
39	MYC	chr15:51913821-51915976	K562	blood:	n/a	chr15:51915320-51915330
40	MAZ	chr15:51914036-51916058	K562	blood:	n/a	chr15:51915320-51915330
41	CEBPD	chr15:51915573-51916230	K562	blood:	n/a	n/a
42	SPI1	chr15:51915723-51915993	K562	blood:	n/a	chr15:51915939-51915946
43	BHLHE40	chr15:51914018-51916234	K562	blood:	n/a	chr15:51914933-51914949 chr15:51914930-51914946 chr15:51915299-51915315
44	JUND	chr15:51914072-51916107	K562	blood:	n/a	chr15:51914847-51914856 chr15:51915670-51915680
45	RFX5	chr15:51914123-51916203	Hela-S3	cervix:	n/a	chr15:51915202-51915219 chr15:51915203-51915218
46	EP300	chr15:51915099-51916213	K562	blood:	n/a	n/a
47	POLR2A	chr15:51914085-51916006	Hela-S3	cervix:	n/a	n/a
48	ATF1	chr15:51915722-51916114	K562	blood:	n/a	n/a
49	ZMIZ1	chr15:51914085-51916142	K562	blood:	n/a	n/a
50	MXI1	chr15:51912307-51916483	SK-N-SH	brain:	n/a	chr15:51915204-51915219 chr15:51915202-51915217

No.	Distal block	Cell Line	Cell type
1	chr15:51895628..51897591-chr15:51913669..51916030,2	MCF-7	breast:
2	chr15:51914606..51918105-chr15:52309438..52311518,3	K562	blood:
3	chr15:51915397..51918003-chr15:52069309..52070981,2	MCF-7	breast:
4	chr15:51913469..51917109-chr15:52042794..52045514,3	MCF-7	breast:
5	chr15:51915278..51917337-chr15:51922529..51924335,2	K562	blood:
6	chr15:51895386..51897033-chr15:51913625..51916763,3	K562	blood:
7	chr15:51693667..51695853-chr15:51915384..51917421,2	K562	blood:
8	chr15:51898533..51902972-chr15:51911457..51915866,6	MCF-7	breast:
9	chr15:51893271..51898734-chr15:51911463..51916763,7	K562	blood:
10	chr15:51914529..51916927-chr15:52121179..52124043,2	MCF-7	breast:
11	chr15:51913874..51916144-chr15:52165568..52168116,2	MCF-7	breast:
12	chr15:51911576..51916583-chr15:52027382..52031699,5	MCF-7	breast:

Variant related genes	Relation type
DMXL2	TF binding region
ENSG00000140280	Chromatin interaction
ENSG00000104093	Chromatin interaction
ENSG00000128872	Chromatin interaction
ENSG00000263437	Chromatin interaction
ENSG00000259377	Chromatin interaction
ENSG00000069956	Chromatin interaction
ENSG00000138594	Chromatin interaction
ENSG00000259438	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1010486	0.98[ASN][1000 genomes]
rs1017679	0.85[CHB][hapmap]
rs10519310	0.89[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10519314	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.87[ASN][1000 genomes]
rs10519315	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs10519316	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.87[ASN][1000 genomes]
rs10519318	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs10519319	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs10519320	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs10519321	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs1471072	0.85[CHB][hapmap];0.84[CHD][hapmap]
rs1599034	0.81[AFR][1000 genomes]
rs16964389	0.84[ASN][1000 genomes]
rs16964465	1.00[CHB][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs16964476	1.00[CHB][hapmap];1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs17648565	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17648801	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs17705035	1.00[CHB][hapmap];0.85[JPT][hapmap];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2124588	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs2124589	0.87[ASN][1000 genomes]
rs2124590	0.87[ASN][1000 genomes]
rs2271674	1.00[CHB][hapmap];0.86[JPT][hapmap];0.87[YRI][hapmap];0.87[AMR][1000 genomes]
rs2271676	1.00[CHB][hapmap];0.94[CHD][hapmap]
rs2305709	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.87[ASN][1000 genomes]
rs2305711	0.87[ASN][1000 genomes]
rs2305715	0.87[ASN][1000 genomes]
rs2305719	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs2622770	0.85[CHB][hapmap];0.84[CHD][hapmap];0.81[ASN][1000 genomes]
rs3214014	0.87[ASN][1000 genomes]
rs3751593	1.00[GIH][hapmap]
rs3764220	0.81[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3765067	0.85[ASN][1000 genomes]
rs3809498	1.00[CHB][hapmap];1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3816544	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs41286490	0.87[ASN][1000 genomes]
rs41286492	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.85[ASN][1000 genomes]
rs55803403	0.80[ASN][1000 genomes]
rs56127635	0.84[ASN][1000 genomes]
rs57860217	0.80[ASN][1000 genomes]
rs60337239	0.87[ASN][1000 genomes]
rs60437890	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs60934476	0.87[ASN][1000 genomes]
rs61642433	0.92[ASN][1000 genomes]
rs7174397	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs74013290	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs8023804	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs8032454	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs977137	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]

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	nsv471243	chr15:51345485-52018096	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv904219	chr15:51851999-51977159	Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	n/a
3	nsv457139	chr15:51854718-51977159	Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	n/a
4	nsv569407	chr15:51854718-51977159	Flanking Active TSS Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	n/a
5	nsv569408	chr15:51867172-51946100	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:51911600-51916000	Active TSS	Brain Inferior Temporal Lobe	brain
2	chr15:51912800-51916600	Active TSS	Rectal Mucosa Donor 29	rectum
3	chr15:51913000-51916200	Active TSS	Pancreatic Islets	Pancreatic Islet
4	chr15:51913400-51916000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr15:51913400-51916000	Active TSS	Fetal Brain Male	brain
6	chr15:51913400-51916000	Active TSS	Fetal Intestine Large	intestine
7	chr15:51913600-51916000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr15:51913600-51916000	Active TSS	Brain Substantia Nigra	brain
9	chr15:51913600-51916000	Active TSS	Stomach Smooth Muscle	stomach
10	chr15:51913600-51916200	Active TSS	Rectal Mucosa Donor 31	rectum
11	chr15:51913800-51916000	Active TSS	Brain Anterior Caudate	brain
12	chr15:51914000-51916000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr15:51914000-51916000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr15:51914000-51916200	Active TSS	Rectal Smooth Muscle	rectum
15	chr15:51914000-51916400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
16	chr15:51914000-51916600	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
17	chr15:51914200-51916000	Active TSS	NH-A	brain
18	chr15:51914400-51916000	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr15:51915400-51916000	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
20	chr15:51915400-51916000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
21	chr15:51915400-51916000	Flanking Active TSS	Primary hematopoietic stem cells	blood
22	chr15:51915400-51916000	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
23	chr15:51915400-51916000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
24	chr15:51915400-51916000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr15:51915400-51916000	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
26	chr15:51915400-51916200	Flanking Active TSS	Primary T cells from cord blood	blood
27	chr15:51915400-51916200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
28	chr15:51915400-51916200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
29	chr15:51915400-51916200	Flanking Active TSS	Dnd41	blood
30	chr15:51915400-51916200	Flanking Active TSS	GM12878-XiMat	blood
31	chr15:51915400-51916200	Flanking Active TSS	K562	blood
32	chr15:51915400-51916400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr15:51915600-51916000	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
34	chr15:51915600-51916000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr15:51915600-51916000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr15:51915600-51916000	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
37	chr15:51915600-51916000	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
38	chr15:51915600-51916000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr15:51915600-51916000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
40	chr15:51915600-51916000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
41	chr15:51915600-51916000	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
42	chr15:51915600-51916000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
43	chr15:51915600-51916000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr15:51915600-51916000	Flanking Active TSS	Adipose Nuclei	Adipose
45	chr15:51915600-51916000	Flanking Active TSS	Brain Angular Gyrus	brain
46	chr15:51915600-51916000	Flanking Active TSS	Brain Cingulate Gyrus	brain
47	chr15:51915600-51916000	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
48	chr15:51915600-51916000	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
49	chr15:51915600-51916000	Flanking Active TSS	Fetal Heart	heart
50	chr15:51915600-51916000	Flanking Active TSS	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links