Variant report

Variant	rs28526570
Chromosome Location	chr15:52322581-52322582
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr15:52322058-52322652	A549	lung:	n/a	n/a
2	POLR2A	chr15:52321688-52322732	HepG2	liver:	n/a	n/a
3	POLR2A	chr15:52321610-52322795	K562	blood:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:52320796..52323655-chr15:52329360..52331417,2	MCF-7	breast:
2	chr15:52320626..52323301-chr15:52332648..52334173,2	MCF-7	breast:
3	chr15:52310333..52312258-chr15:52319867..52323299,4	K562	blood:
4	chr15:52262832..52265688-chr15:52320899..52325318,4	MCF-7	breast:
5	chr15:52319102..52323371-chr15:52325005..52329761,6	K562	blood:

No data

Variant related genes	Relation type
ENSG00000259398	TF binding region
ENSG00000166477	Chromatin interaction
ENSG00000259438	Chromatin interaction
ENSG00000259398	Chromatin interaction
ENSG00000069956	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs13329107	1.00[AMR][1000 genomes]
rs2435085	1.00[AMR][1000 genomes]
rs28419297	1.00[AMR][1000 genomes]
rs28583278	1.00[AMR][1000 genomes]
rs28832044	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2914782	1.00[AMR][1000 genomes]
rs4776015	1.00[AMR][1000 genomes]

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	nsv1047260	chr15:52257100-52337418	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
2	nsv1050664	chr15:52265723-52342101	Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
3	nsv530681	chr15:52297253-52390470	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	nsv471244	chr15:52305463-52511465	Enhancers Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
5	nsv984198	chr15:52319726-52481137	Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52312800-52345400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr15:52313400-52325400	Weak transcription	Aorta	Aorta
3	chr15:52313600-52324800	Weak transcription	Fetal Stomach	stomach
4	chr15:52313600-52325400	Weak transcription	Thymus	Thymus
5	chr15:52313800-52329400	Weak transcription	Fetal Heart	heart
6	chr15:52314400-52325400	Weak transcription	Fetal Lung	lung
7	chr15:52314400-52359800	Weak transcription	Fetal Brain Male	brain
8	chr15:52314600-52323800	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr15:52314600-52325200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr15:52314600-52325400	Weak transcription	Esophagus	oesophagus
11	chr15:52314600-52325400	Weak transcription	HSMM	muscle
12	chr15:52314600-52330600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr15:52314600-52332200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr15:52314800-52323000	Weak transcription	Fetal Intestine Small	intestine
15	chr15:52314800-52324600	Weak transcription	Fetal Muscle Leg	muscle
16	chr15:52314800-52325000	Weak transcription	Fetal Brain Female	brain
17	chr15:52314800-52325200	Weak transcription	NHDF-Ad	bronchial
18	chr15:52314800-52325400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr15:52314800-52325400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr15:52314800-52325400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr15:52314800-52325400	Weak transcription	Duodenum Mucosa	Duodenum
22	chr15:52314800-52325400	Weak transcription	Right Ventricle	heart
23	chr15:52314800-52329400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr15:52314800-52330200	Weak transcription	Ovary	ovary
25	chr15:52314800-52330200	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr15:52314800-52331200	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr15:52315200-52324800	Weak transcription	Fetal Thymus	thymus
28	chr15:52315200-52331800	Weak transcription	Colonic Mucosa	Colon
29	chr15:52315600-52325400	Weak transcription	Fetal Kidney	kidney
30	chr15:52315600-52325400	Weak transcription	Gastric	stomach
31	chr15:52315600-52325400	Weak transcription	HUVEC	blood vessel
32	chr15:52315600-52325600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr15:52315600-52329400	Weak transcription	Right Atrium	heart
34	chr15:52315600-52332200	Weak transcription	NHLF	lung
35	chr15:52315800-52325000	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr15:52315800-52325600	Weak transcription	Pancreatic Islets	Pancreatic Islet
37	chr15:52315800-52325600	Weak transcription	Rectal Smooth Muscle	rectum
38	chr15:52315800-52328400	Weak transcription	Adipose Nuclei	Adipose
39	chr15:52316000-52323400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr15:52316000-52325400	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr15:52316000-52325400	Weak transcription	Left Ventricle	heart
42	chr15:52316000-52325800	Weak transcription	Primary T cells fromperipheralblood	blood
43	chr15:52316000-52330400	Weak transcription	Psoas Muscle	Psoas
44	chr15:52316000-52330600	Weak transcription	Pancreas	Pancrea
45	chr15:52316000-52332200	Weak transcription	Stomach Smooth Muscle	stomach
46	chr15:52316200-52325000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr15:52317400-52330600	Weak transcription	Small Intestine	intestine
48	chr15:52317400-52332200	Weak transcription	Lung	lung
49	chr15:52318400-52325200	Weak transcription	Primary hematopoietic stem cells	blood
50	chr15:52318800-52323800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links