Variant report

Variant	rs16957161
Chromosome Location	chr15:72878110-72878111
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:78)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:78 , 50 per page) page: 1 2

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RAD21	chr15:72877966-72878421	H1-hESC	embryonic stem cell:	n/a	n/a
2	CTCF	chr15:72878099-72878313	H1-hESC	embryonic stem cell:	n/a	n/a
3	GATA2	chr15:72878057-72878472	HUVEC	blood vessel:	n/a	chr15:72878240-72878254
4	CTCF	chr15:72878100-72878250	BE2_C	brain:	n/a	n/a
5	CTCF	chr15:72878032-72878221	A549	lung:	n/a	n/a
6	GATA3	chr15:72878068-72878412	SH-SY5Y	brain:	n/a	n/a
7	CTCF	chr15:72877980-72878501	MCF-7	breast:	n/a	n/a
8	POLR2A	chr15:72875838-72883343	K562	blood:	n/a	n/a
9	CTCF	chr15:72878040-72878190	HRPEpiC	eye:	n/a	n/a
10	CTCF	chr15:72878092-72878306	A549	lung:	n/a	n/a
11	CTCF	chr15:72878073-72878346	MCF-7	breast:	n/a	n/a
12	CTCF	chr15:72878034-72878366	IMR90	lung:	n/a	n/a
13	CTCF	chr15:72878080-72878230	AG09319	gingival:	n/a	n/a
14	RAD21	chr15:72878066-72878334	IMR90	lung:	n/a	n/a
15	RAD21	chr15:72878035-72878355	HepG2	liver:	n/a	n/a
16	CTCF	chr15:72878100-72878250	HA-sp	spinal cord:	n/a	n/a
17	CTCF	chr15:72878080-72878230	HAc	cerebellar:	n/a	n/a
18	CTCF	chr15:72878020-72878170	HVMF	connective:	n/a	n/a
19	GATA3	chr15:72878063-72878421	T-47D	breast:	n/a	n/a
20	CTCF	chr15:72878020-72878170	HUVEC	blood vessel:	n/a	n/a
21	CTCF	chr15:72878027-72878272	SK-N-SH_RA	brain:	n/a	n/a
22	GATA3	chr15:72878060-72878404	T-47D	breast:	n/a	n/a
23	CTCF	chr15:72878100-72878250	HEK293	kidney:	n/a	n/a
24	CTCF	chr15:72878080-72878230	HRE	kidney:	n/a	n/a
25	CTCF	chr15:72878080-72878230	A549	lung:	n/a	n/a
26	CTCF	chr15:72878050-72878373	K562	blood:	n/a	n/a
27	RAD21	chr15:72878041-72878365	Hela-S3	cervix:	n/a	n/a
28	RAD21	chr15:72878068-72878315	H1-hESC	embryonic stem cell:	n/a	n/a
29	RAD21	chr15:72877882-72878496	MCF-7	breast:	n/a	n/a
30	CTCF	chr15:72878080-72878230	NHLF	lung:	n/a	n/a
31	CTCF	chr15:72878000-72878150	GM12873	blood:	n/a	n/a
32	CTCF	chr15:72878060-72878210	MCF-7	breast:	n/a	n/a
33	RAD21	chr15:72877954-72878481	A549	lung:	n/a	n/a
34	CTCF	chr15:72878100-72878250	AG10803	skin:	n/a	n/a
35	GATA2	chr15:72878060-72878432	SH-SY5Y	brain:	n/a	chr15:72878240-72878254
36	GATA3	chr15:72877966-72878567	SK-N-SH	brain:	n/a	n/a
37	POLR2A	chr15:72878044-72878380	MCF-7	breast:	n/a	n/a
38	CTCF	chr15:72877954-72878444	A549	lung:	n/a	n/a
39	RAD21	chr15:72877925-72878480	A549	lung:	n/a	n/a
40	RAD21	chr15:72878026-72878364	A549	lung:	n/a	n/a
41	CTCF	chr15:72878080-72878230	AoAF	blood vessel:	n/a	n/a
42	CTCF	chr15:72878100-72878250	Hela-S3	cervix:	n/a	n/a
43	CTCF	chr15:72878100-72878250	HPAF	blood vessel:	n/a	n/a
44	CTCF	chr15:72878080-72878230	GM06990	blood:	n/a	n/a
45	CTCF	chr15:72878100-72878250	HEEpiC	esophagus:	n/a	n/a
46	CTCF	chr15:72878000-72878150	AG04450	lung:	n/a	n/a
47	CTCF	chr15:72878080-72878230	HMF	breast:	n/a	n/a
48	CTCF	chr15:72877937-72878448	HCT-116	colon:	n/a	n/a
49	CTCF	chr15:72878076-72878301	HepG2	liver:	n/a	n/a
50	CTCF	chr15:72878100-72878250	AoAF	blood vessel:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:72867565..72869086-chr15:72877556..72879281,2	MCF-7	breast:
2	chr15:72875994..72878313-chr15:72882141..72883878,2	MCF-7	breast:
3	chr15:72876608..72879489-chr15:72887263..72889049,2	MCF-7	breast:
4	chr15:72674377..72675186-chr15:72877692..72878568,2	MCF-7	breast:
5	chr15:72764026..72766932-chr15:72877151..72879938,2	K562	blood:
6	chr15:72871985..72876083-chr15:72877411..72879866,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000260534	TF binding region
MIR630	TF binding region
ENSG00000261423	Chromatin interaction
ENSG00000166233	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10220917	1.00[ASN][1000 genomes]
rs11072372	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs12324592	1.00[ASN][1000 genomes]
rs12439127	1.00[ASN][1000 genomes]
rs13379855	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16953788	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16956759	1.00[ASN][1000 genomes]
rs16956826	0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16956904	1.00[CHB][hapmap]
rs16957154	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16957189	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs1816645	0.96[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1963894	1.00[ASN][1000 genomes]
rs28393893	1.00[ASN][1000 genomes]
rs28422889	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28435710	1.00[ASN][1000 genomes]
rs28437631	1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs28439115	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28453701	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28471053	1.00[ASN][1000 genomes]
rs28488862	1.00[ASN][1000 genomes]
rs28493570	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28534054	1.00[ASN][1000 genomes]
rs28541481	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28602765	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28661594	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28795465	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28832330	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28853391	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4777516	1.00[ASN][1000 genomes]
rs6495002	1.00[ASN][1000 genomes]
rs72735194	1.00[ASN][1000 genomes]
rs73440562	1.00[ASN][1000 genomes]
rs73440566	1.00[ASN][1000 genomes]
rs73440586	1.00[ASN][1000 genomes]
rs73442510	1.00[ASN][1000 genomes]
rs8039489	1.00[ASN][1000 genomes]
rs9806212	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9806258	0.96[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9806374	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9944261	1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs998225	1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];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	nsv534037	chr15:72659210-72964029	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats 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 miRNA target site	73 gene(s)	inside rSNPs	diseases
2	nsv569947	chr15:72800853-72878772	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv569948	chr15:72811402-72878772	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
4	esv2758386	chr15:72819785-73120560	Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
5	esv2760039	chr15:72819785-73120560	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
6	nsv428307	chr15:72819785-73120560	Strong transcription Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
7	esv3430383	chr15:72821093-73035167	Strong transcription Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
8	nsv521972	chr15:72859770-72878772	ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Enhancers	TF binding region CpG island Chromatin interactive region miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72829200-72880800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:72841000-72909000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr15:72846600-72878400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
4	chr15:72847000-72878400	Strong transcription	Primary T cells fromperipheralblood	blood
5	chr15:72847800-72878400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr15:72850200-72880800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr15:72852000-72878800	Strong transcription	Placenta	Placenta
8	chr15:72852800-72878400	Strong transcription	Primary T helper cells PMA-I stimulated	--
9	chr15:72853600-72879800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr15:72854400-72879400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr15:72855200-72878400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
12	chr15:72855800-72879800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr15:72857400-72878400	Strong transcription	Primary monocytes fromperipheralblood	blood
14	chr15:72857400-72881000	Strong transcription	Monocytes-CD14+_RO01746	blood
15	chr15:72858200-72878600	Strong transcription	HUES6 Cell Line	embryonic stem cell
16	chr15:72858400-72878200	Strong transcription	Primary T cells from cord blood	blood
17	chr15:72859200-72880000	Strong transcription	Liver	Liver
18	chr15:72861000-72878800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr15:72861400-72880000	Strong transcription	Rectal Mucosa Donor 29	rectum
20	chr15:72862400-72878400	Strong transcription	Primary neutrophils fromperipheralblood	blood
21	chr15:72866400-72878400	Strong transcription	Rectal Mucosa Donor 31	rectum
22	chr15:72866600-72878400	Strong transcription	Skeletal Muscle Female	skeletal muscle
23	chr15:72866800-72879400	Strong transcription	GM12878-XiMat	blood
24	chr15:72868200-72879400	Strong transcription	HSMM	muscle
25	chr15:72869800-72878400	Strong transcription	Fetal Thymus	thymus
26	chr15:72870000-72878400	Strong transcription	Primary B cells from cord blood	blood
27	chr15:72870000-72878400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr15:72870000-72878400	Strong transcription	Sigmoid Colon	Sigmoid Colon
29	chr15:72870000-72879800	Strong transcription	NH-A	brain
30	chr15:72870200-72878400	Strong transcription	HMEC	breast
31	chr15:72870200-72878600	Strong transcription	Primary T helper cells fromperipheralblood	blood
32	chr15:72870400-72878400	Strong transcription	HepG2	liver
33	chr15:72870400-72881600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr15:72870800-72879200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr15:72870800-72880000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
36	chr15:72870800-72887800	Weak transcription	Right Ventricle	heart
37	chr15:72870800-72896400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr15:72870800-72902200	Weak transcription	Gastric	stomach
39	chr15:72871000-72878600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr15:72871600-72878600	Strong transcription	Primary hematopoietic stem cells	blood
41	chr15:72871600-72878600	Strong transcription	Duodenum Mucosa	Duodenum
42	chr15:72871600-72878800	Strong transcription	HUES64 Cell Line	embryonic stem cell
43	chr15:72871600-72878800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr15:72871600-72878800	Strong transcription	Fetal Muscle Trunk	muscle
45	chr15:72871600-72879400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr15:72871600-72889400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr15:72871800-72878600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr15:72871800-72878800	Strong transcription	A549	lung
49	chr15:72871800-72879200	Strong transcription	Fetal Intestine Large	intestine
50	chr15:72871800-72879600	Strong transcription	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links