Variant report

Variant	rs62027052
Chromosome Location	chr15:76603928-76603929
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:483)
CpG islands
(count:0)
Chromatin interactive
region (count:24)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:483 , 50 per page) page: 1 2 3 4 5 6 7 ... 10

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MAX	chr15:76602914-76604266	Hela-S3	cervix:	n/a	n/a
2	FOS	chr15:76603729-76604008	MCF10A-Er-Src	breast:	n/a	n/a
3	POLR2A	chr15:76602755-76604226	GM12892	blood:	n/a	n/a
4	MAX	chr15:76603396-76604202	HepG2	liver:	n/a	n/a
5	USF2	chr15:76603482-76604029	HepG2	liver:	n/a	n/a
6	POLR2A	chr15:76602871-76604217	GM12878	blood:	n/a	n/a
7	NFATC1	chr15:76603675-76604217	GM12878	blood:	n/a	n/a
8	REST	chr15:76603698-76604097	PANC-1	pancreas:	n/a	n/a
9	NFATC1	chr15:76603789-76604226	GM12878	blood:	n/a	n/a
10	E2F6	chr15:76603257-76604177	H1-hESC	embryonic stem cell:	n/a	chr15:76603904-76603916
11	NR2F2	chr15:76603636-76604188	K562	blood:	n/a	n/a
12	POLR2A	chr15:76603473-76604257	PANC-1	pancreas:	n/a	n/a
13	POLR2A	chr15:76602925-76604202	K562	blood:	n/a	n/a
14	POLR2A	chr15:76602986-76604192	GM18505	blood:	n/a	n/a
15	POLR2A	chr15:76603192-76604205	GM18951	blood:	n/a	n/a
16	TAF1	chr15:76603126-76604217	Hela-S3	cervix:	n/a	n/a
17	TCF12	chr15:76603446-76604184	ECC-1	luminal epithelium:	n/a	n/a
18	E2F4	chr15:76603475-76604142	K562	blood:	n/a	chr15:76603904-76603916
19	POLR2A	chr15:76603286-76604241	ProgFib	skin:	n/a	n/a
20	POLR2A	chr15:76603386-76604168	U87	brain:	n/a	n/a
21	YY1	chr15:76603032-76604116	K562	blood:	n/a	chr15:76603885-76603899 chr15:76603886-76603897
22	POLR2A	chr15:76602697-76604145	K562	blood:	n/a	n/a
23	HDAC2	chr15:76603412-76604022	HepG2	liver:	n/a	chr15:76603830-76603839
24	EP300	chr15:76603659-76604105	SK-N-SH_RA	brain:	n/a	chr15:76603979-76603995
25	TAF1	chr15:76603595-76604278	MCF-7	breast:	n/a	n/a
26	PML	chr15:76603368-76604334	GM12878	blood:	n/a	n/a
27	MAX	chr15:76603097-76604298	HepG2	liver:	n/a	n/a
28	MAX	chr15:76602940-76604389	A549	lung:	n/a	n/a
29	FOXA2	chr15:76603552-76604211	A549	lung:	n/a	n/a
30	E2F6	chr15:76603112-76604284	H1-hESC	embryonic stem cell:	n/a	chr15:76603904-76603916
31	POLR2A	chr15:76603134-76604200	GM12892	blood:	n/a	n/a
32	RXRA	chr15:76603607-76604299	HepG2	liver:	n/a	chr15:76603936-76603949 chr15:76603936-76603949 chr15:76603936-76603949 chr15:76603935-76603949
33	TAF1	chr15:76603555-76603963	PFSK-1	brain:	n/a	n/a
34	GTF2B	chr15:76603019-76604113	K562	blood:	n/a	n/a
35	UBTF	chr15:76602949-76604197	K562	blood:	n/a	n/a
36	RCOR1	chr15:76603378-76604212	K562	blood:	n/a	n/a
37	POLR2A	chr15:76603491-76604237	SK-N-SH	brain:	n/a	n/a
38	ETS1	chr15:76603467-76604259	A549	lung:	n/a	chr15:76603734-76603745 chr15:76603736-76603752
39	SP1	chr15:76603170-76604329	A549	lung:	n/a	chr15:76603868-76603889 chr15:76603190-76603202 chr15:76603191-76603201 chr15:76603186-76603196 chr15:76603894-76603915 chr15:76603192-76603201
40	HEY1	chr15:76603389-76604191	K562	blood:	n/a	n/a
41	TCF7L2	chr15:76603709-76604214	PANC-1	pancreas:	n/a	n/a
42	TAF1	chr15:76603577-76604131	GM12878	blood:	n/a	n/a
43	SPI1	chr15:76603703-76604076	GM12878	blood:	n/a	n/a
44	MAX	chr15:76603396-76604123	K562	blood:	n/a	n/a
45	TAF1	chr15:76603333-76604160	HepG2	liver:	n/a	n/a
46	YY1	chr15:76603626-76603969	HCT-116	colon:	n/a	chr15:76603885-76603899 chr15:76603886-76603897
47	POLR2A	chr15:76603016-76604155	K562	blood:	n/a	n/a
48	SPI1	chr15:76603769-76604031	K562	blood:	n/a	n/a
49	POLR2A	chr15:76603549-76604106	A549	lung:	n/a	n/a
50	POLR2A	chr15:76602984-76604231	K562	blood:	n/a	n/a

No data

(count:24 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:76603682..76604209-chr22:19419697..19420202,2	HCT-116	colon:
2	chr15:76603369..76604011-chr4:79859804..79860621,2	Hela-S3	cervix:
3	chr15:76603268..76604108-chr17:41465695..41466359,2	Hela-S3	cervix:
4	chr15:76603595..76604138-chr2:54342354..54343006,2	HCT-116	colon:
5	chr11:46867369..46868150-chr15:76603245..76603939,2	Hela-S3	cervix:
6	chr15:76582923..76594852-chr15:76601949..76606997,18	MCF-7	breast:
7	chr15:76603454..76604019-chr16:67969707..67970408,2	Hela-S3	cervix:
8	chr15:76517181..76519721-chr15:76602211..76604425,2	K562	blood:
9	chr15:76577736..76580355-chr15:76602966..76605157,2	MCF-7	breast:
10	chr1:32403461..32404101-chr15:76603301..76604035,2	Hela-S3	cervix:
11	chr15:76603148..76604121-chr2:97001077..97001691,2	Hela-S3	cervix:
12	chr15:76602419..76607116-chr15:76626572..76631104,6	MCF-7	breast:
13	chr15:76603349..76604082-chr5:31532161..31532828,2	Hela-S3	cervix:
14	chr15:76601574..76614388-chr15:76623703..76634730,38	K562	blood:
15	chr15:76602919..76604847-chr15:77361875..77364736,2	K562	blood:
16	chr15:76584959..76587924-chr15:76602984..76605259,2	K562	blood:
17	chr15:76603254..76604196-chr17:34900638..34901493,2	Hela-S3	cervix:
18	chr15:76603407..76604071-chr16:2204657..2205287,2	Hela-S3	cervix:
19	chr15:76600511..76607655-chr15:76613791..76629933,32	MCF-7	breast:
20	chr15:76603879..76604550-chr2:9695486..9696482,2	NB4	blood:
21	chr15:76573739..76576523-chr15:76603684..76605605,3	K562	blood:
22	chr15:76584135..76596152-chr15:76600630..76606670,15	MCF-7	breast:
23	chr15:76603305..76604106-chr2:100105951..100106601,2	Hela-S3	cervix:
24	chr15:76601310..76610583-chr15:76618699..76634643,40	K562	blood:

No data

Variant related genes	Relation type
ETFA	TF binding region
ENSG00000185608	Chromatin interaction
ENSG00000005955	Chromatin interaction
ENSG00000261884	Chromatin interaction
ENSG00000175216	Chromatin interaction
ENSG00000113360	Chromatin interaction
ENSG00000140374	Chromatin interaction
ENSG00000205220	Chromatin interaction
ENSG00000140391	Chromatin interaction
ENSG00000206630	Chromatin interaction
ENSG00000247675	Chromatin interaction
ENSG00000170634	Chromatin interaction
ENSG00000271855	Chromatin interaction
ENSG00000151694	Chromatin interaction
ENSG00000259514	Chromatin interaction
ENSG00000188825	Chromatin interaction
ENSG00000163291	Chromatin interaction
ENSG00000135945	Chromatin interaction
ENSG00000184007	Chromatin interaction
ENSG00000082213	Chromatin interaction
ENSG00000159556	Chromatin interaction
ENSG00000121152	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs12437866	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12441111	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2404972	0.96[ASN][1000 genomes]
rs62027056	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7171795	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv520069	chr15:76602212-76609181	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 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	chr15:76602000-76604000	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:76602000-76604000	Active TSS	HUES6 Cell Line	embryonic stem cell
3	chr15:76602000-76604200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr15:76602000-76604200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr15:76602200-76604000	Active TSS	HSMMtube	muscle
6	chr15:76602200-76604200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr15:76602200-76604200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
8	chr15:76602200-76604400	Active TSS	Stomach Smooth Muscle	stomach
9	chr15:76602400-76604000	Active TSS	H1 Cell Line	embryonic stem cell
10	chr15:76602400-76604000	Active TSS	HUES48 Cell Line	embryonic stem cell
11	chr15:76602400-76604000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr15:76602400-76604000	Active TSS	A549	lung
13	chr15:76602400-76604200	Active TSS	Breast Myoepithelial Primary Cells	Breast
14	chr15:76602400-76604200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr15:76602400-76604400	Active TSS	ES-I3 Cell Line	embryonic stem cell
16	chr15:76602400-76604400	Active TSS	Rectal Mucosa Donor 29	rectum
17	chr15:76602400-76604400	Active TSS	NHLF	lung
18	chr15:76602600-76604000	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr15:76602600-76604000	Active TSS	Fetal Heart	heart
20	chr15:76602600-76604000	Active TSS	Skeletal Muscle Male	skeletal muscle
21	chr15:76602600-76604000	Active TSS	NHDF-Ad	bronchial
22	chr15:76602600-76604200	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr15:76602600-76604200	Active TSS	Fetal Intestine Small	intestine
24	chr15:76602600-76604200	Active TSS	Pancreatic Islets	Pancreatic Islet
25	chr15:76602600-76604200	Active TSS	Fetal Stomach	stomach
26	chr15:76602600-76604200	Active TSS	Lung	lung
27	chr15:76602600-76604200	Active TSS	Ovary	ovary
28	chr15:76602600-76604200	Active TSS	Psoas Muscle	Psoas
29	chr15:76602600-76604200	Active TSS	Right Atrium	heart
30	chr15:76602600-76604200	Active TSS	Right Ventricle	heart
31	chr15:76602600-76604200	Active TSS	Sigmoid Colon	Sigmoid Colon
32	chr15:76602600-76604200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
33	chr15:76602600-76604400	Active TSS	Fetal Intestine Large	intestine
34	chr15:76602600-76604400	Active TSS	Rectal Smooth Muscle	rectum
35	chr15:76602800-76604000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr15:76602800-76604000	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr15:76602800-76604000	Active TSS	Fetal Muscle Leg	muscle
38	chr15:76602800-76604000	Active TSS	Placenta	Placenta
39	chr15:76602800-76604000	Active TSS	Fetal Thymus	thymus
40	chr15:76602800-76604000	Active TSS	GM12878-XiMat	blood
41	chr15:76602800-76604000	Active TSS	HSMM	muscle
42	chr15:76602800-76604200	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
43	chr15:76602800-76604200	Active TSS	H9 Cell Line	embryonic stem cell
44	chr15:76602800-76604200	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
45	chr15:76602800-76604200	Flanking Active TSS	Primary hematopoietic stem cells	blood
46	chr15:76602800-76604200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr15:76602800-76604200	Active TSS	Brain Substantia Nigra	brain
48	chr15:76602800-76604200	Active TSS	Colon Smooth Muscle	Colon
49	chr15:76602800-76604200	Active TSS	Left Ventricle	heart
50	chr15:76602800-76604400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links