Variant report

Variant	rs28383489
Chromosome Location	chr15:59396547-59396548
allele	C/T
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	E2F4	chr15:59396531-59398695	MCF10A-Er-Src	breast:	n/a	chr15:59397222-59397231
2	PML	chr15:59396542-59397671	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:59277958..59282108-chr15:59396207..59399778,7	K562	blood:
2	chr15:59395795..59398698-chr15:59981439..59982956,2	K562	blood:
3	chr15:59223805..59226728-chr15:59396182..59398979,2	MCF-7	breast:
4	chr15:59391505..59393672-chr15:59394009..59396903,2	MCF-7	breast:
5	chr15:59223596..59226559-chr15:59396307..59399219,5	K562	blood:
6	chr15:59224236..59226559-chr15:59396307..59398942,5	K562	blood:

Variant related genes	Relation type
CCNB2	TF binding region
ENSG00000137776	Chromatin interaction
ENSG00000140299	Chromatin interaction
ENSG00000157450	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11548099	1.00[AMR][1000 genomes]
rs28383501	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28383508	1.00[AMR][1000 genomes]
rs28383518	1.00[AMR][1000 genomes]
rs28383530	1.00[AMR][1000 genomes]
rs28383532	1.00[AMR][1000 genomes]
rs28383548	1.00[AMR][1000 genomes]
rs73416900	1.00[AMR][1000 genomes]
rs74017400	1.00[AMR][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	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	esv1850946	chr15:59174539-59429160	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
3	nsv833025	chr15:59336148-59522176	Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59354400-59396800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:59355600-59396600	Weak transcription	Fetal Heart	heart
3	chr15:59359400-59396600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr15:59374000-59396800	Weak transcription	Ovary	ovary
5	chr15:59374200-59396600	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr15:59374200-59396800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr15:59374200-59396800	Weak transcription	Right Ventricle	heart
8	chr15:59374400-59396800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr15:59377200-59397000	Weak transcription	Gastric	stomach
10	chr15:59379400-59396600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr15:59384200-59396600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr15:59384200-59396600	Weak transcription	NHLF	lung
13	chr15:59384200-59396800	Weak transcription	Lung	lung
14	chr15:59384200-59396800	Weak transcription	Pancreas	Pancrea
15	chr15:59385200-59396800	Weak transcription	Psoas Muscle	Psoas
16	chr15:59385200-59396800	Weak transcription	Small Intestine	intestine
17	chr15:59385400-59396600	Weak transcription	Brain Angular Gyrus	brain
18	chr15:59385400-59396600	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr15:59385400-59396800	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr15:59385400-59396800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr15:59385400-59396800	Weak transcription	Brain Germinal Matrix	brain
22	chr15:59385800-59396600	Weak transcription	Rectal Smooth Muscle	rectum
23	chr15:59385800-59396800	Weak transcription	Fetal Muscle Leg	muscle
24	chr15:59385800-59397000	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr15:59385800-59397400	Weak transcription	Spleen	Spleen
26	chr15:59387200-59396800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr15:59387400-59396600	Weak transcription	Brain Cingulate Gyrus	brain
28	chr15:59387400-59396800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr15:59387800-59396600	Weak transcription	NHEK	skin
30	chr15:59388400-59396600	Weak transcription	Fetal Kidney	kidney
31	chr15:59388800-59396600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr15:59389200-59396600	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr15:59389200-59396600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr15:59389200-59396600	Weak transcription	Brain Anterior Caudate	brain
35	chr15:59389200-59396600	Weak transcription	Brain Hippocampus Middle	brain
36	chr15:59389200-59396600	Weak transcription	Duodenum Mucosa	Duodenum
37	chr15:59389200-59396600	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr15:59389200-59396600	Weak transcription	Stomach Smooth Muscle	stomach
39	chr15:59389200-59396800	Weak transcription	H1 Cell Line	embryonic stem cell
40	chr15:59389200-59396800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr15:59389200-59396800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
42	chr15:59389200-59396800	Weak transcription	Primary T cells fromperipheralblood	blood
43	chr15:59389200-59396800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr15:59389200-59396800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr15:59389200-59396800	Weak transcription	Colonic Mucosa	Colon
46	chr15:59389200-59396800	Weak transcription	Esophagus	oesophagus
47	chr15:59389200-59396800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr15:59389200-59396800	Weak transcription	Fetal Intestine Large	intestine
49	chr15:59389200-59396800	Weak transcription	Left Ventricle	heart
50	chr15:59389200-59397200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links