Variant report

Variant	rs556260760
Chromosome Location	chr15:57209996-57209997
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	POLR2A	chr15:57209696-57212423	H1-hESC	embryonic stem cell:	n/a	n/a
2	MAX	chr15:57209841-57210747	H1-hESC	embryonic stem cell:	n/a	n/a
3	POLR2A	chr15:57209256-57213061	MCF10A-Er-Src	breast:	n/a	n/a
4	JUN	chr15:57209836-57213020	K562	blood:	n/a	chr15:57211660-57211671 chr15:57211663-57211673 chr15:57212474-57212482 chr15:57211663-57211673 chr15:57212472-57212484 chr15:57211663-57211673 chr15:57212473-57212483
5	MAX	chr15:57209944-57211084	K562	blood:	n/a	chr15:57210744-57210754
6	MYC	chr15:57209765-57211087	K562	blood:	n/a	chr15:57210744-57210754
7	E2F6	chr15:57209826-57211149	H1-hESC	embryonic stem cell:	n/a	chr15:57210776-57210785 chr15:57210743-57210752 chr15:57211095-57211105 chr15:57210740-57210752
8	MAX	chr15:57209993-57211003	A549	lung:	n/a	chr15:57210744-57210754
9	MTA3	chr15:57209958-57211028	GM12878	blood:	n/a	n/a
10	MAZ	chr15:57209943-57212243	IMR90	lung:	n/a	chr15:57210744-57210754
11	PBX3	chr15:57209834-57211194	A549	lung:	n/a	n/a
12	POLR2A	chr15:57209944-57212530	HUVEC	blood vessel:	n/a	n/a
13	YY1	chr15:57209718-57211626	GM12891	blood:	n/a	chr15:57209903-57209915 chr15:57211431-57211442 chr15:57211309-57211323 chr15:57210743-57210752
14	POLR2A	chr15:57209892-57212391	K562	blood:	n/a	n/a
15	RCOR1	chr15:57209712-57211415	GM12878	blood:	n/a	n/a
16	MAX	chr15:57209863-57211107	H1-hESC	embryonic stem cell:	n/a	chr15:57210744-57210754
17	YY1	chr15:57209726-57211968	K562	blood:	n/a	chr15:57209903-57209915 chr15:57211431-57211442 chr15:57211905-57211919 chr15:57211309-57211323 chr15:57211877-57211886 chr15:57210743-57210752
18	BHLHE40	chr15:57209970-57211075	GM12878	blood:	n/a	n/a
19	MAX	chr15:57209946-57211021	H1-hESC	embryonic stem cell:	n/a	chr15:57210744-57210754
20	CTBP2	chr15:57209945-57211423	H1-hESC	embryonic stem cell:	n/a	n/a
21	POLR2A	chr15:57209911-57212289	K562	blood:	n/a	n/a
22	TBP	chr15:57209819-57212677	K562	blood:	n/a	n/a
23	BHLHE40	chr15:57209815-57211033	K562	blood:	n/a	n/a
24	RELA	chr15:57209866-57212325	GM12891	blood:	n/a	n/a
25	YY1	chr15:57209746-57210146	GM12892	blood:	n/a	chr15:57209903-57209915
26	MAX	chr15:57209939-57210955	K562	blood:	n/a	chr15:57210744-57210754
27	POLR2A	chr15:57209631-57211915	K562	blood:	n/a	n/a
28	WRNIP1	chr15:57209733-57210697	GM12878	blood:	n/a	n/a
29	TCF12	chr15:57209706-57212503	A549	lung:	n/a	chr15:57211095-57211105 chr15:57212346-57212356
30	POLR2A	chr15:57209837-57211162	GM12878	blood:	n/a	n/a
31	YY1	chr15:57209648-57210084	H1-hESC	embryonic stem cell:	n/a	chr15:57209903-57209915
32	YY1	chr15:57209662-57211753	GM12878	blood:	n/a	chr15:57209903-57209915 chr15:57211431-57211442 chr15:57211309-57211323 chr15:57210743-57210752
33	TEAD4	chr15:57209622-57211065	K562	blood:	n/a	n/a
34	E2F6	chr15:57209718-57211189	A549	lung:	n/a	chr15:57210776-57210785 chr15:57210743-57210752 chr15:57211095-57211105 chr15:57210740-57210752
35	POLR2A	chr15:57209867-57212244	GM19193	blood:	n/a	n/a
36	REST	chr15:57209707-57211197	A549	lung:	n/a	chr15:57210844-57210857 chr15:57210717-57210730
37	RUNX3	chr15:57209962-57211819	GM12878	blood:	n/a	n/a
38	POLR2A	chr15:57209863-57212401	K562	blood:	n/a	n/a
39	YY1	chr15:57209741-57210098	GM12892	blood:	n/a	chr15:57209903-57209915
40	POLR2A	chr15:57209914-57212462	GM12878	blood:	n/a	n/a
41	POLR2A	chr15:57209781-57212497	GM18505	blood:	n/a	n/a
42	UBTF	chr15:57209946-57212521	K562	blood:	n/a	n/a
43	MAX	chr15:57209546-57212889	A549	lung:	n/a	chr15:57210744-57210754
44	E2F6	chr15:57209952-57211002	K562	blood:	n/a	chr15:57210776-57210785 chr15:57210743-57210752 chr15:57210740-57210752
45	ELF1	chr15:57209948-57212281	GM12878	blood:	n/a	n/a
46	ZNF384	chr15:57209793-57211068	K562	blood:	n/a	n/a
47	YY1	chr15:57209633-57210170	H1-hESC	embryonic stem cell:	n/a	chr15:57209903-57209915
48	E2F6	chr15:57209607-57212068	K562	blood:	n/a	chr15:57211231-57211238 chr15:57210776-57210785 chr15:57211230-57211239 chr15:57210743-57210752 chr15:57211231-57211238 chr15:57211095-57211105 chr15:57211309-57211318 chr15:57211231-57211238 chr15:57211926-57211938 chr15:57210740-57210752
49	MTA3	chr15:57209616-57211158	GM12878	blood:	n/a	n/a
50	EP300	chr15:57209883-57210991	K562	blood:	n/a	chr15:57210924-57210940

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:57023111..57027218-chr15:57209095..57213054,4	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MNS1-3	chr15:57209738-57210697	ENSG00000248500
2	lnc-MNS1-3	chr15:57209738-57210691	ENSG00000259484.1

Variant related genes	Relation type
ZNF280D	TF binding region
TCF12	TF binding region
ENSG00000137871	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3422474	chr15:56867190-57244330	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv833020	chr15:57055947-57216068	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv457162	chr15:57083006-57225766	Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised 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	19 gene(s)	inside rSNPs	diseases
4	nsv569577	chr15:57083006-57225766	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv1042486	chr15:57094598-57505992	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
6	nsv542393	chr15:57115116-57341363	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription 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	21 gene(s)	inside rSNPs	diseases
7	esv3419108	chr15:57209560-57212908	Flanking Active TSS Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57208600-57210000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:57209000-57210000	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
3	chr15:57209000-57210200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr15:57209000-57210200	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
5	chr15:57209000-57210200	Enhancers	Spleen	Spleen
6	chr15:57209000-57210200	Flanking Active TSS	K562	blood
7	chr15:57209000-57210400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr15:57209000-57210400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr15:57209000-57210400	Flanking Active TSS	Adipose Nuclei	Adipose
10	chr15:57209200-57210000	Transcr. at gene 5' and 3'	Fetal Lung	lung
11	chr15:57209200-57210000	Enhancers	Placenta Amnion	Placenta Amnion
12	chr15:57209200-57210000	Flanking Active TSS	A549	lung
13	chr15:57209200-57210200	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
14	chr15:57209200-57210200	Flanking Active TSS	Brain Hippocampus Middle	brain
15	chr15:57209200-57210200	Flanking Active TSS	Fetal Heart	heart
16	chr15:57209200-57210200	Enhancers	Small Intestine	intestine
17	chr15:57209200-57210200	Flanking Active TSS	Osteobl	bone
18	chr15:57209200-57210600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr15:57209200-57210600	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
20	chr15:57209200-57212200	Active TSS	Stomach Smooth Muscle	stomach
21	chr15:57209200-57213000	Active TSS	ES-I3 Cell Line	embryonic stem cell
22	chr15:57209200-57213000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr15:57209400-57210200	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
24	chr15:57209400-57210200	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
25	chr15:57209400-57210200	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
26	chr15:57209400-57210200	Flanking Active TSS	Fetal Muscle Leg	muscle
27	chr15:57209400-57210200	Active TSS	Right Atrium	heart
28	chr15:57209400-57210400	Flanking Active TSS	Fetal Brain Male	brain
29	chr15:57209400-57211000	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr15:57209400-57212200	Active TSS	Colon Smooth Muscle	Colon
31	chr15:57209400-57212800	Active TSS	Pancreatic Islets	Pancreatic Islet
32	chr15:57209400-57213200	Active TSS	HUES6 Cell Line	embryonic stem cell
33	chr15:57209400-57213400	Active TSS	HSMMtube	muscle
34	chr15:57209400-57217200	Active TSS	Thymus	Thymus
35	chr15:57209600-57210000	Flanking Active TSS	H9 Cell Line	embryonic stem cell
36	chr15:57209600-57210000	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
37	chr15:57209600-57210000	Flanking Active TSS	Brain Anterior Caudate	brain
38	chr15:57209600-57210000	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
39	chr15:57209600-57210000	Flanking Active TSS	Fetal Brain Female	brain
40	chr15:57209600-57210000	Flanking Active TSS	Fetal Intestine Large	intestine
41	chr15:57209600-57210000	Active TSS	Fetal Muscle Trunk	muscle
42	chr15:57209600-57210000	Flanking Active TSS	Lung	lung
43	chr15:57209600-57210000	Flanking Active TSS	Rectal Smooth Muscle	rectum
44	chr15:57209600-57210000	Flanking Active TSS	Sigmoid Colon	Sigmoid Colon
45	chr15:57209600-57210200	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
46	chr15:57209600-57210200	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
47	chr15:57209600-57210200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr15:57209600-57210200	Flanking Active TSS	Primary hematopoietic stem cells	blood
49	chr15:57209600-57210200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
50	chr15:57209600-57210200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links