Variant report

Variant	rs74018312
Chromosome Location	chr15:55491418-55491419
allele	C/T
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:7)
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	SETDB1	chr15:55490650-55491551	U2OS	brain:	n/a	n/a
2	KAP1	chr15:55490216-55492297	K562	blood:	n/a	n/a
3	SETDB1	chr15:55490329-55491659	K562	blood:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:55468513..55470349-chr15:55490736..55492904,2	K562	blood:
2	chr15:55489042..55491644-chr15:55640711..55643190,2	K562	blood:
3	chr15:55487872..55490645-chr15:55490710..55492637,2	K562	blood:
4	chr15:55489860..55492561-chr15:55500870..55502505,2	K562	blood:
5	chr15:55485508..55492313-chr15:55579801..55583590,12	K562	blood:
6	chr15:55491408..55493022-chr15:55511973..55513991,2	K562	blood:
7	chr15:55490157..55491866-chr15:55610487..55612972,2	MCF-7	breast:

No data

Variant related genes	Relation type
RSL24D1	TF binding region
ENSG00000225973	Chromatin interaction
ENSG00000069974	Chromatin interaction
ENSG00000069943	Chromatin interaction
ENSG00000137876	Chromatin interaction

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10047995	0.89[EUR][1000 genomes]
rs10152400	0.89[EUR][1000 genomes]
rs10518800	0.86[EUR][1000 genomes]
rs11852793	0.86[EUR][1000 genomes]
rs11855490	1.00[EUR][1000 genomes]
rs11858001	0.89[EUR][1000 genomes]
rs16976069	0.86[EUR][1000 genomes]
rs16976076	0.86[EUR][1000 genomes]
rs2414403	0.89[EUR][1000 genomes]
rs2414404	0.82[AFR][1000 genomes]
rs28435858	0.81[AFR][1000 genomes]
rs28565375	0.86[EUR][1000 genomes]
rs524935	0.86[EUR][1000 genomes]
rs58922764	0.89[EUR][1000 genomes]
rs59357544	0.86[EUR][1000 genomes]
rs59683414	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60802234	0.89[EUR][1000 genomes]
rs61023306	0.84[AFR][1000 genomes]
rs6493764	0.89[EUR][1000 genomes]
rs6493765	0.89[EUR][1000 genomes]
rs7163677	0.89[EUR][1000 genomes]
rs7168226	1.00[EUR][1000 genomes]
rs7169357	0.89[EUR][1000 genomes]
rs7179785	0.84[AFR][1000 genomes]
rs73404044	0.84[EUR][1000 genomes]
rs73404055	0.84[EUR][1000 genomes]
rs73404072	0.86[EUR][1000 genomes]
rs73404076	0.86[EUR][1000 genomes]
rs73404078	0.86[EUR][1000 genomes]
rs73404093	0.86[EUR][1000 genomes]
rs73405810	0.89[EUR][1000 genomes]
rs73405811	0.89[EUR][1000 genomes]
rs73405825	0.89[EUR][1000 genomes]
rs73405883	0.89[EUR][1000 genomes]
rs73405887	0.89[EUR][1000 genomes]
rs73405889	0.89[EUR][1000 genomes]
rs73405890	0.89[EUR][1000 genomes]
rs73405894	0.86[EUR][1000 genomes]
rs73405895	0.86[EUR][1000 genomes]
rs73405898	0.89[EUR][1000 genomes]
rs73407806	0.86[EUR][1000 genomes]
rs73407807	0.86[EUR][1000 genomes]
rs73407809	0.86[EUR][1000 genomes]
rs73407811	0.86[EUR][1000 genomes]
rs73407814	0.86[EUR][1000 genomes]
rs73407815	0.86[EUR][1000 genomes]
rs73407816	0.86[EUR][1000 genomes]
rs73407817	0.86[EUR][1000 genomes]
rs73407821	0.89[EUR][1000 genomes]
rs73407823	0.89[EUR][1000 genomes]
rs73407850	0.97[EUR][1000 genomes]
rs73409840	0.97[EUR][1000 genomes]
rs74015506	0.97[EUR][1000 genomes]
rs8026190	0.84[AFR][1000 genomes];0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs8038091	0.92[EUR][1000 genomes]
rs8042411	0.92[EUR][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	nsv1043176	chr15:55010228-55563000	Genic enhancers Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1042741	chr15:55068022-55622497	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers 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 miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv1039471	chr15:55137606-55552555	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv917323	chr15:55290499-56041334	Genic enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
5	nsv1043789	chr15:55400872-56092454	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:55489600-55497600	Weak transcription	Gastric	stomach
2	chr15:55489600-55504000	Weak transcription	Spleen	Spleen
3	chr15:55489600-55513200	Weak transcription	Lung	lung
4	chr15:55489800-55499400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr15:55489800-55503400	Weak transcription	Pancreas	Pancrea
6	chr15:55489800-55540200	Weak transcription	Esophagus	oesophagus
7	chr15:55490000-55493800	Weak transcription	Stomach Mucosa	stomach
8	chr15:55490000-55496000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr15:55490000-55496400	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr15:55490000-55496600	Weak transcription	Liver	Liver
11	chr15:55490000-55496800	Weak transcription	Placenta	Placenta
12	chr15:55490000-55497400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr15:55490000-55497400	Weak transcription	Adipose Nuclei	Adipose
14	chr15:55490000-55497600	Weak transcription	Fetal Stomach	stomach
15	chr15:55490000-55501600	Weak transcription	Left Ventricle	heart
16	chr15:55490000-55502000	Weak transcription	Colonic Mucosa	Colon
17	chr15:55490000-55509600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr15:55490000-55510000	Weak transcription	NHLF	lung
19	chr15:55490000-55513000	Weak transcription	Fetal Intestine Large	intestine
20	chr15:55490000-55513200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr15:55490000-55513200	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr15:55490000-55513200	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr15:55490000-55517200	Weak transcription	Aorta	Aorta
24	chr15:55490000-55529400	Weak transcription	Rectal Smooth Muscle	rectum
25	chr15:55490000-55562800	Weak transcription	Ovary	ovary
26	chr15:55490200-55494200	Weak transcription	HepG2	liver
27	chr15:55490200-55494400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr15:55490200-55496400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr15:55490200-55496400	Weak transcription	Stomach Smooth Muscle	stomach
30	chr15:55490200-55496600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr15:55490200-55496800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr15:55490200-55497000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
33	chr15:55490200-55497000	Weak transcription	Primary B cells from peripheral blood	blood
34	chr15:55490200-55497000	Weak transcription	Primary hematopoietic stem cells	blood
35	chr15:55490200-55497200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
36	chr15:55490200-55497200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
37	chr15:55490200-55499400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr15:55490200-55510000	Weak transcription	Fetal Kidney	kidney
39	chr15:55490200-55510200	Weak transcription	Fetal Lung	lung
40	chr15:55490200-55511400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr15:55490200-55511400	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr15:55490200-55511400	Weak transcription	Osteobl	bone
43	chr15:55490200-55513200	Weak transcription	Duodenum Mucosa	Duodenum
44	chr15:55490200-55513800	Weak transcription	Duodenum Smooth Muscle	Duodenum
45	chr15:55490200-55514000	Weak transcription	Rectal Mucosa Donor 31	rectum
46	chr15:55490400-55493800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr15:55490400-55493800	Weak transcription	Monocytes-CD14+_RO01746	blood
48	chr15:55490400-55495000	Weak transcription	Primary monocytes fromperipheralblood	blood
49	chr15:55490400-55496600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
50	chr15:55490400-55496800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links