Variant report

Variant	rs3744333
Chromosome Location	chr17:15142755-15142756
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:15141620..15144073-chr17:15150924..15153203,2	K562	blood:
2	chr17:15140658..15142879-chr17:15167225..15168851,2	K562	blood:
3	chr17:15142573..15145462-chr17:15150924..15153034,2	K562	blood:

Variant related genes	Relation type
ENSG00000109099	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs13027	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16951239	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2215236	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3785646	0.83[CHD][hapmap];0.86[GIH][hapmap];0.91[JPT][hapmap];0.80[EUR][1000 genomes]
rs3785653	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3785654	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3826362	0.83[CHD][hapmap];0.86[GIH][hapmap];0.91[JPT][hapmap];0.80[EUR][1000 genomes]
rs59723054	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6502439	0.91[EUR][1000 genomes]
rs7215851	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7221491	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72812936	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72812942	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72812947	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73977960	0.94[EUR][1000 genomes]
rs73977961	0.94[EUR][1000 genomes]
rs740649	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9889622	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9899379	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1066329	chr17:14983674-15294071	Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
2	nsv543212	chr17:14983674-15294071	Active TSS Genic enhancers Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
3	nsv492304	chr17:15043353-15611753	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
4	nsv916652	chr17:15093600-15856310	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:15131600-15145600	Strong transcription	Fetal Muscle Trunk	muscle
2	chr17:15132200-15144400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr17:15132200-15158800	Weak transcription	Hela-S3	cervix
4	chr17:15132400-15143200	Strong transcription	HSMMtube	muscle
5	chr17:15132600-15142800	Weak transcription	Esophagus	oesophagus
6	chr17:15134400-15151000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr17:15134600-15143200	Strong transcription	HSMM	muscle
8	chr17:15135200-15144800	Genic enhancers	Colon Smooth Muscle	Colon
9	chr17:15135600-15143400	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr17:15135800-15151200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr17:15135800-15160200	Weak transcription	Pancreas	Pancrea
12	chr17:15137000-15151200	Weak transcription	Fetal Intestine Small	intestine
13	chr17:15137200-15158000	Weak transcription	Stomach Mucosa	stomach
14	chr17:15137400-15143400	Strong transcription	Fetal Muscle Leg	muscle
15	chr17:15137800-15143000	Strong transcription	Stomach Smooth Muscle	stomach
16	chr17:15138000-15144200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
17	chr17:15138400-15143000	Strong transcription	Cortex derived primary cultured neurospheres	brain
18	chr17:15138600-15144200	Enhancers	Primary monocytes fromperipheralblood	blood
19	chr17:15139000-15143000	Strong transcription	Brain Anterior Caudate	brain
20	chr17:15139000-15143000	Genic enhancers	Skeletal Muscle Female	skeletal muscle
21	chr17:15139000-15143400	Strong transcription	Duodenum Smooth Muscle	Duodenum
22	chr17:15139000-15152800	Weak transcription	Colonic Mucosa	Colon
23	chr17:15139400-15143000	Strong transcription	Muscle Satellite Cultured Cells	--
24	chr17:15139400-15143000	Genic enhancers	Right Ventricle	heart
25	chr17:15139400-15143200	Genic enhancers	Adipose Nuclei	Adipose
26	chr17:15139400-15143600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr17:15139600-15143000	Strong transcription	HUVEC	blood vessel
28	chr17:15139800-15143000	Strong transcription	Brain Inferior Temporal Lobe	brain
29	chr17:15139800-15148400	Weak transcription	Right Atrium	heart
30	chr17:15139800-15151200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr17:15139800-15160200	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr17:15140000-15145800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr17:15140200-15147800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr17:15140200-15151000	Weak transcription	HMEC	breast
35	chr17:15140400-15143000	Strong transcription	Osteobl	bone
36	chr17:15140400-15143200	Strong transcription	Fetal Lung	lung
37	chr17:15140600-15143000	Strong transcription	Brain Cingulate Gyrus	brain
38	chr17:15140600-15143000	Strong transcription	Rectal Mucosa Donor 29	rectum
39	chr17:15140600-15143000	Strong transcription	Sigmoid Colon	Sigmoid Colon
40	chr17:15140600-15143000	Strong transcription	NHLF	lung
41	chr17:15140800-15144000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr17:15141000-15143200	Strong transcription	Fetal Intestine Large	intestine
43	chr17:15141200-15143200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr17:15141200-15143200	Enhancers	Monocytes-CD14+_RO01746	blood
45	chr17:15141400-15142800	Strong transcription	Brain Hippocampus Middle	brain
46	chr17:15141400-15142800	Strong transcription	Fetal Brain Male	brain
47	chr17:15141400-15143000	Strong transcription	Aorta	Aorta
48	chr17:15141400-15143200	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr17:15141400-15144200	Strong transcription	Fetal Stomach	stomach
50	chr17:15141600-15142800	Strong transcription	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links