Variant report

Variant	rs2959907
Chromosome Location	chr15:72515207-72515208
allele	A/C
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	POLR2A	chr15:72514181-72517214	GM12892	blood:	n/a	n/a
2	POLR2A	chr15:72510600-72517250	U87	brain:	n/a	n/a
3	PBX3	chr15:72514668-72515356	SK-N-SH	brain:	n/a	chr15:72515163-72515172
4	POLR2A	chr15:72514351-72516262	HepG2	liver:	n/a	n/a
5	POLR2A	chr15:72513970-72517229	Hela-S3	cervix:	n/a	n/a
6	POLR2A	chr15:72514530-72515357	PFSK-1	brain:	n/a	n/a
7	FOSL2	chr15:72514775-72515213	A549	lung:	n/a	chr15:72514947-72514955 chr15:72514945-72514957
8	POLR2A	chr15:72515029-72515250	HepG2	liver:	n/a	n/a
9	POLR2A	chr15:72514521-72515275	MCF10A-Er-Src	breast:	n/a	n/a
10	POLR2A	chr15:72514517-72515289	Hela-S3	cervix:	n/a	n/a
11	POLR2A	chr15:72505274-72517371	U87	brain:	n/a	n/a
12	FOS	chr15:72514638-72515272	MCF10A-Er-Src	breast:	n/a	chr15:72514947-72514955 chr15:72514945-72514957
13	MAX	chr15:72514679-72515212	SK-N-SH	brain:	n/a	n/a
14	POLR2A	chr15:72514708-72515228	H1-hESC	embryonic stem cell:	n/a	n/a
15	FOSL2	chr15:72514600-72515274	SK-N-SH	brain:	n/a	chr15:72514947-72514955 chr15:72514945-72514957
16	POLR2A	chr15:72511065-72517077	GM12878	blood:	n/a	n/a
17	FOSL2	chr15:72514439-72515262	A549	lung:	n/a	chr15:72514947-72514955 chr15:72514945-72514957
18	POLR2A	chr15:72514319-72517118	GM12878	blood:	n/a	n/a
19	STAT3	chr15:72514177-72515460	MCF10A-Er-Src	breast:	n/a	chr15:72514867-72514878 chr15:72514869-72514877
20	CTCF	chr15:72515100-72515250	A549	lung:	n/a	n/a
21	POLR2A	chr15:72514077-72515346	SK-N-MC	brain:	n/a	n/a
22	POLR2A	chr15:72507467-72517250	U87	brain:	n/a	n/a
23	POLR2A	chr15:72514581-72515245	MCF-7	breast:	n/a	n/a
24	POLR2A	chr15:72514490-72515308	HL-60	blood:	n/a	n/a
25	POLR2A	chr15:72514226-72515349	GM12892	blood:	n/a	n/a
26	POLR2A	chr15:72514535-72515301	HCT-116	colon:	n/a	n/a
27	MYC	chr15:72514440-72515251	MCF10A-Er-Src	breast:	n/a	n/a
28	STAT3	chr15:72514588-72515331	MCF10A-Er-Src	breast:	n/a	chr15:72514867-72514878 chr15:72514869-72514877
29	POLR2A	chr15:72513968-72517235	HepG2	liver:	n/a	n/a
30	POLR2A	chr15:72514306-72517174	GM12878	blood:	n/a	n/a
31	JUND	chr15:72514554-72515264	A549	lung:	n/a	chr15:72514947-72514955 chr15:72514945-72514957
32	POLR2A	chr15:72510812-72517224	GM12891	blood:	n/a	n/a
33	POLR2A	chr15:72514542-72515218	K562	blood:	n/a	n/a
34	MAX	chr15:72514339-72515392	A549	lung:	n/a	n/a
35	POLR2A	chr15:72514484-72515260	GM12891	blood:	n/a	n/a
36	FOS	chr15:72514598-72515212	MCF10A-Er-Src	breast:	n/a	chr15:72514947-72514955 chr15:72514945-72514957
37	POLR2A	chr15:72514247-72517233	GM12891	blood:	n/a	n/a
38	POLR2A	chr15:72514423-72515252	GM12891	blood:	n/a	n/a
39	POLR2A	chr15:72514117-72517134	Hela-S3	cervix:	n/a	n/a
40	MYC	chr15:72514644-72515232	MCF10A-Er-Src	breast:	n/a	n/a
41	POLR2A	chr15:72514879-72515274	HepG2	liver:	n/a	n/a
42	JUND	chr15:72514674-72515224	A549	lung:	n/a	chr15:72514947-72514955 chr15:72514945-72514957
43	POLR2A	chr15:72514885-72515283	IMR90	lung:	n/a	n/a
44	WRNIP1	chr15:72514509-72517102	GM12878	blood:	n/a	n/a
45	POLR2A	chr15:72513972-72515935	SK-N-SH	brain:	n/a	n/a
46	POLR2A	chr15:72514552-72516146	Hela-S3	cervix:	n/a	n/a
47	ELF1	chr15:72514767-72515278	A549	lung:	n/a	n/a
48	POLR2A	chr15:72514576-72515248	HL-60	blood:	n/a	n/a
49	POLR2A	chr15:72514461-72515280	GM12891	blood:	n/a	n/a
50	POLR2A	chr15:72514266-72516216	GM12892	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:72476500..72479008-chr15:72515049..72516702,2	MCF-7	breast:
2	chr15:72513653..72518363-chr15:72563063..72568184,5	MCF-7	breast:
3	chr15:72498391..72500734-chr15:72513499..72516225,2	K562	blood:
4	chr15:72514333..72526693-chr15:72558323..72568559,52	MCF-7	breast:
5	chr15:72505538..72509992-chr15:72512503..72516214,6	K562	blood:

Variant related genes	Relation type
PKM	TF binding region
ENSG00000067225	Chromatin interaction
ENSG00000137817	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10851849	1.00[EUR][1000 genomes]
rs11072348	1.00[EUR][1000 genomes]
rs11072352	1.00[EUR][1000 genomes]
rs12593333	1.00[EUR][1000 genomes]
rs12903688	1.00[EUR][1000 genomes]
rs1457030	1.00[EUR][1000 genomes]
rs1598714	1.00[EUR][1000 genomes]
rs1800431	1.00[EUR][1000 genomes]
rs2415131	1.00[EUR][1000 genomes]
rs2856926	1.00[EUR][1000 genomes]
rs2912208	1.00[EUR][1000 genomes]
rs2912209	1.00[EUR][1000 genomes]
rs2912211	1.00[EUR][1000 genomes]
rs2912212	1.00[EUR][1000 genomes]
rs2912213	1.00[EUR][1000 genomes]
rs2912218	1.00[EUR][1000 genomes]
rs2912232	1.00[EUR][1000 genomes]
rs2925647	1.00[EUR][1000 genomes]
rs2925651	1.00[EUR][1000 genomes]
rs2929516	1.00[EUR][1000 genomes]
rs2929520	1.00[EUR][1000 genomes]
rs2929523	1.00[EUR][1000 genomes]
rs2957367	1.00[EUR][1000 genomes]
rs2957370	1.00[EUR][1000 genomes]
rs2957371	1.00[EUR][1000 genomes]
rs2957722	1.00[EUR][1000 genomes]
rs2959901	1.00[EUR][1000 genomes]
rs2959902	1.00[EUR][1000 genomes]
rs2959905	1.00[EUR][1000 genomes]
rs2959920	1.00[EUR][1000 genomes]
rs2959928	1.00[EUR][1000 genomes]
rs2959934	1.00[EUR][1000 genomes]
rs2959936	1.00[EUR][1000 genomes]
rs2959937	1.00[EUR][1000 genomes]
rs2959942	1.00[EUR][1000 genomes]
rs35293819	1.00[EUR][1000 genomes]
rs35514603	1.00[EUR][1000 genomes]
rs4238451	1.00[EUR][1000 genomes]
rs4265763	1.00[EUR][1000 genomes]
rs4461029	1.00[EUR][1000 genomes]
rs4776587	1.00[EUR][1000 genomes]
rs4776588	1.00[EUR][1000 genomes]
rs4777487	1.00[EUR][1000 genomes]
rs4777493	1.00[EUR][1000 genomes]
rs4777502	1.00[EUR][1000 genomes]
rs56168468	1.00[EUR][1000 genomes]
rs6494988	1.00[EUR][1000 genomes]
rs6494989	1.00[EUR][1000 genomes]
rs6494995	1.00[EUR][1000 genomes]
rs7170173	1.00[EUR][1000 genomes]
rs7171097	1.00[EUR][1000 genomes]
rs7173348	1.00[EUR][1000 genomes]
rs7173532	1.00[EUR][1000 genomes]
rs7177512	1.00[EUR][1000 genomes]
rs7179691	1.00[EUR][1000 genomes]
rs7180934	1.00[EUR][1000 genomes]
rs8031658	1.00[EUR][1000 genomes]
rs8034892	1.00[EUR][1000 genomes]
rs8037749	1.00[EUR][1000 genomes]
rs930871	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv431395	chr15:72266174-72701777	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
2	nsv530817	chr15:72350885-72773374	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	173 gene(s)	inside rSNPs	diseases
3	esv3430860	chr15:72373723-72849907	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Strong transcription 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	172 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72490600-72515600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:72490600-72518000	Strong transcription	Dnd41	blood
3	chr15:72490800-72518400	Strong transcription	HUES48 Cell Line	embryonic stem cell
4	chr15:72496600-72518800	Strong transcription	Fetal Stomach	stomach
5	chr15:72508600-72515800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr15:72509200-72517200	Genic enhancers	HepG2	liver
7	chr15:72509400-72518800	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr15:72511000-72517800	Genic enhancers	Muscle Satellite Cultured Cells	--
9	chr15:72511000-72519000	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr15:72511000-72519000	Genic enhancers	HSMM	muscle
11	chr15:72511200-72517200	Genic enhancers	Fetal Muscle Leg	muscle
12	chr15:72511400-72521800	Weak transcription	Liver	Liver
13	chr15:72511600-72517800	Weak transcription	Brain Germinal Matrix	brain
14	chr15:72511600-72518000	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr15:72511600-72519000	Weak transcription	Fetal Brain Male	brain
16	chr15:72511600-72519000	Weak transcription	Fetal Kidney	kidney
17	chr15:72511600-72519000	Weak transcription	Ovary	ovary
18	chr15:72511800-72515800	Enhancers	Fetal Heart	heart
19	chr15:72511800-72516200	Enhancers	Brain Hippocampus Middle	brain
20	chr15:72511800-72517000	Genic enhancers	Primary neutrophils fromperipheralblood	blood
21	chr15:72511800-72517200	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
22	chr15:72511800-72517800	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr15:72511800-72518200	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
24	chr15:72512000-72516000	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
25	chr15:72512000-72517200	Transcr. at gene 5' and 3'	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr15:72512200-72517200	Genic enhancers	Primary T helper cells fromperipheralblood	blood
27	chr15:72512400-72515800	Genic enhancers	Duodenum Mucosa	Duodenum
28	chr15:72512400-72518000	Genic enhancers	Primary monocytes fromperipheralblood	blood
29	chr15:72512600-72516400	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr15:72512600-72517200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr15:72512600-72519000	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr15:72512600-72519200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
33	chr15:72512800-72515400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
34	chr15:72512800-72516400	Weak transcription	Colonic Mucosa	Colon
35	chr15:72513000-72515400	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr15:72513000-72516600	Genic enhancers	HSMMtube	muscle
37	chr15:72513000-72518400	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
38	chr15:72513400-72515600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr15:72513400-72519000	Weak transcription	Fetal Lung	lung
40	chr15:72513600-72516600	Enhancers	Brain Substantia Nigra	brain
41	chr15:72513600-72516800	Strong transcription	Primary B cells from cord blood	blood
42	chr15:72513600-72518200	Genic enhancers	Monocytes-CD14+_RO01746	blood
43	chr15:72513600-72519000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
44	chr15:72513800-72515600	Weak transcription	H1 Cell Line	embryonic stem cell
45	chr15:72513800-72515600	Weak transcription	Fetal Intestine Large	intestine
46	chr15:72513800-72515600	Weak transcription	Rectal Mucosa Donor 31	rectum
47	chr15:72513800-72515800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr15:72513800-72518400	Weak transcription	Primary hematopoietic stem cells	blood
49	chr15:72513800-72518400	Weak transcription	Fetal Brain Female	brain
50	chr15:72514200-72517000	Genic enhancers	Primary T cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links