Variant report

Variant	rs560243142
Chromosome Location	chr5:15500141-15500142
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	SIN3A	chr5:15499664-15501937	H1-hESC	embryonic stem cell:	n/a	chr5:15500416-15500429 chr5:15500559-15500572
2	CTCF	chr5:15500100-15500250	HPAF	blood vessel:	n/a	n/a
3	POLR2A	chr5:15499932-15501283	HUVEC	blood vessel:	n/a	n/a
4	CTCF	chr5:15500140-15500290	HBMEC	blood vessel:	n/a	n/a
5	MAX	chr5:15499787-15500410	SK-N-SH	brain:	n/a	n/a
6	PBX3	chr5:15499917-15500534	SK-N-SH	brain:	n/a	n/a
7	POLR2A	chr5:15499947-15500432	H1-hESC	embryonic stem cell:	n/a	n/a
8	SP4	chr5:15499992-15500401	H1-hESC	embryonic stem cell:	n/a	n/a
9	POLR2A	chr5:15499986-15500480	A549	lung:	n/a	n/a
10	POLR2A	chr5:15499876-15500482	SK-N-SH	brain:	n/a	n/a
11	POLR2A	chr5:15499886-15500736	H1-hESC	embryonic stem cell:	n/a	n/a
12	SIN3AK20	chr5:15500046-15500458	H1-hESC	embryonic stem cell:	n/a	n/a
13	ZNF143	chr5:15500063-15500873	H1-hESC	embryonic stem cell:	n/a	chr5:15500284-15500294
14	RAD21	chr5:15500138-15500340	GM12878	blood:	n/a	n/a
15	YY1	chr5:15499681-15500339	SK-N-SH_RA	brain:	n/a	n/a
16	CTCF	chr5:15500140-15500290	RPTEC	kidney:	n/a	n/a
17	CTCF	chr5:15500072-15500295	SK-N-SH_RA	brain:	n/a	n/a
18	TBP	chr5:15499682-15500953	H1-hESC	embryonic stem cell:	n/a	n/a
19	CTCF	chr5:15500040-15500190	HepG2	liver:	n/a	n/a
20	CTCF	chr5:15499941-15500760	IMR90	lung:	n/a	chr5:15500594-15500612 chr5:15500585-15500594 chr5:15500569-15500582
21	POLR2A	chr5:15499923-15500911	HUVEC	blood vessel:	n/a	n/a
22	MAX	chr5:15499614-15500453	A549	lung:	n/a	n/a
23	PBX3	chr5:15499663-15500463	SK-N-SH	brain:	n/a	n/a
24	POLR2A	chr5:15499585-15500608	HUVEC	blood vessel:	n/a	n/a
25	POLR2A	chr5:15500140-15500453	SK-N-SH	brain:	n/a	n/a
26	CTCF	chr5:15500140-15500290	AG09319	gingival:	n/a	n/a
27	YY1	chr5:15499745-15500433	H1-hESC	embryonic stem cell:	n/a	n/a
28	RAD21	chr5:15499731-15501975	IMR90	lung:	n/a	chr5:15501643-15501650 chr5:15501212-15501222 chr5:15500595-15500614 chr5:15500403-15500416
29	CREB1	chr5:15500025-15500418	A549	lung:	n/a	n/a
30	NANOG	chr5:15499969-15500220	H1-hESC	embryonic stem cell:	n/a	n/a
31	CTCF	chr5:15500140-15500290	HPF	lung:	n/a	n/a
32	TAF1	chr5:15500007-15500506	H1-hESC	embryonic stem cell:	n/a	n/a
33	TAF7	chr5:15500070-15500447	H1-hESC	embryonic stem cell:	n/a	n/a
34	RAD21	chr5:15499934-15500413	SK-N-SH_RA	brain:	n/a	n/a
35	RAD21	chr5:15500069-15500442	H1-hESC	embryonic stem cell:	n/a	chr5:15500403-15500416
36	POLR2A	chr5:15499822-15501110	Gliobla	brain:	n/a	n/a
37	CTCF	chr5:15500120-15500270	HRPEpiC	eye:	n/a	n/a
38	ZNF263	chr5:15499986-15501683	HEK293-T-REx	kidney:	n/a	chr5:15500862-15500871 chr5:15500199-15500208 chr5:15501531-15501540 chr5:15500865-15500886
39	CTCF	chr5:15500100-15500250	NHDF-neo	bronchial:	n/a	n/a
40	CTCF	chr5:15500120-15500270	HRE	kidney:	n/a	n/a
41	POLR2A	chr5:15499925-15500525	HUVEC	blood vessel:	n/a	n/a
42	CTCF	chr5:15500100-15500250	AG10803	skin:	n/a	n/a
43	PBX3	chr5:15499950-15500463	A549	lung:	n/a	n/a
44	RAD21	chr5:15499982-15500976	H1-hESC	embryonic stem cell:	n/a	chr5:15500595-15500614 chr5:15500403-15500416
45	MAX	chr5:15499806-15500356	A549	lung:	n/a	n/a
46	CTBP2	chr5:15500015-15501869	H1-hESC	embryonic stem cell:	n/a	n/a
47	MAX	chr5:15499914-15500410	SK-N-SH	brain:	n/a	n/a
48	CTCF	chr5:15500140-15500290	HCFaa	heart:	n/a	n/a
49	POLR2A	chr5:15500071-15501140	IMR90	lung:	n/a	n/a
50	POLR2A	chr5:15499665-15501053	HUVEC	blood vessel:	n/a	n/a

Variant related genes	Relation type
FBXL7	TF binding region

Extended variants
information (count: 5 )
Associated
traits (count: 0)

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	nsv516929	chr5:15087791-15870300	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1023068	chr5:15095221-15863583	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv869040	chr5:15097602-15866117	Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv530222	chr5:15151662-15851485	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	esv3345774	chr5:15499527-15501975	Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:15499400-15500200	Flanking Active TSS	HUVEC	blood vessel
2	chr5:15499400-15500600	Active TSS	Brain Inferior Temporal Lobe	brain
3	chr5:15499400-15500800	Active TSS	H1 Cell Line	embryonic stem cell
4	chr5:15499400-15501600	Active TSS	Brain Anterior Caudate	brain
5	chr5:15499400-15501800	Active TSS	Brain Hippocampus Middle	brain
6	chr5:15499400-15502200	Active TSS	ES-I3 Cell Line	embryonic stem cell
7	chr5:15499400-15502600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr5:15499400-15502600	Active TSS	Colon Smooth Muscle	Colon
9	chr5:15499400-15502600	Active TSS	NHDF-Ad	bronchial
10	chr5:15499400-15502800	Active TSS	Brain Substantia Nigra	brain
11	chr5:15499600-15500200	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr5:15499600-15500200	Flanking Bivalent TSS/Enh	Adipose Nuclei	Adipose
13	chr5:15499600-15500200	Active TSS	Fetal Heart	heart
14	chr5:15499600-15500200	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
15	chr5:15499600-15500200	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
16	chr5:15499600-15500400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr5:15499600-15500800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
18	chr5:15499600-15500800	Active TSS	A549	lung
19	chr5:15499600-15501000	Active TSS	iPS-15b Cell Line	embryonic stem cell
20	chr5:15499600-15501000	Active TSS	iPS-20b Cell Line	embryonic stem cell
21	chr5:15499600-15501600	Active TSS	Placenta Amnion	Placenta Amnion
22	chr5:15499600-15501600	Active TSS	Stomach Smooth Muscle	stomach
23	chr5:15499600-15501800	Active TSS	HUES6 Cell Line	embryonic stem cell
24	chr5:15499600-15502000	Active TSS	H9 Cell Line	embryonic stem cell
25	chr5:15499600-15502000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr5:15499600-15502000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr5:15499600-15502000	Bivalent/Poised TSS	Fetal Intestine Large	intestine
28	chr5:15499600-15502000	Bivalent/Poised TSS	Skeletal Muscle Female	skeletal muscle
29	chr5:15499600-15502200	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr5:15499600-15502400	Active TSS	Breast Myoepithelial Primary Cells	Breast
31	chr5:15499600-15502400	Active TSS	Fetal Adrenal Gland	Adrenal Gland
32	chr5:15499600-15502400	Active TSS	NH-A	brain
33	chr5:15499600-15502600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr5:15499600-15502600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr5:15499600-15502600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr5:15499600-15502600	Active TSS	Aorta	Aorta
37	chr5:15499600-15502600	Active TSS	Fetal Muscle Trunk	muscle
38	chr5:15499600-15502600	Active TSS	Right Ventricle	heart
39	chr5:15499600-15502800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr5:15499600-15502800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr5:15499600-15502800	Bivalent/Poised TSS	Fetal Intestine Small	intestine
42	chr5:15499600-15502800	Active TSS	Fetal Kidney	kidney
43	chr5:15499600-15502800	Active TSS	Left Ventricle	heart
44	chr5:15499600-15502800	Active TSS	Ovary	ovary
45	chr5:15499600-15503000	Active TSS	Right Atrium	heart
46	chr5:15499800-15500200	Flanking Active TSS	Fetal Brain Male	brain
47	chr5:15499800-15500200	Flanking Active TSS	NHLF	lung
48	chr5:15499800-15500400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr5:15499800-15500400	Active TSS	Colonic Mucosa	Colon
50	chr5:15499800-15500400	Flanking Active TSS	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links