Variant report

Variant	rs17023724
Chromosome Location	chr4:148657004-148657005
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr4:148652844..148654562-chr4:148655409..148657775,3	MCF-7	breast:
2	chr4:148654907..148656449-chr4:148656457..148658051,2	MCF-7	breast:
3	chr4:148655649..148657627-chr4:148748335..148749948,2	MCF-7	breast:
4	chr4:148655205..148657346-chr4:148658350..148660032,2	MCF-7	breast:
5	chr4:148655598..148657433-chr4:148661220..148663896,2	MCF-7	breast:
6	chr4:148656183..148658281-chr4:148663299..148667161,4	MCF-7	breast:
7	chr4:148655157..148657016-chr4:148664536..148666375,2	MCF-7	breast:
8	chr4:148655373..148657177-chr4:148661205..148664133,2	K562	blood:
9	chr4:148649646..148651392-chr4:148654953..148657402,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000071205	Chromatin interaction
ENSG00000252951	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10010511	1.00[AMR][1000 genomes]
rs10015122	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs10305935	1.00[AMR][1000 genomes]
rs10305938	1.00[AMR][1000 genomes]
rs17023637	1.00[AMR][1000 genomes]
rs17023733	1.00[AMR][1000 genomes]
rs17023744	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17023757	1.00[AMR][1000 genomes]
rs17023761	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17023763	1.00[AMR][1000 genomes]
rs17023771	1.00[AMR][1000 genomes]
rs28412528	1.00[AMR][1000 genomes]
rs28416759	1.00[AMR][1000 genomes]
rs28437023	1.00[AMR][1000 genomes]
rs28476507	1.00[AMR][1000 genomes]
rs28536542	1.00[AMR][1000 genomes]
rs28559891	1.00[AMR][1000 genomes]
rs28582558	1.00[AMR][1000 genomes]
rs28706741	1.00[AMR][1000 genomes]
rs5339	1.00[AMR][1000 genomes]
rs5340	1.00[AMR][1000 genomes]
rs9991057	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs9992593	1.00[YRI][hapmap];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028958	chr4:148377752-148793485	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv498083	chr4:148519825-148917583	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:148652400-148657400	Active TSS	Right Ventricle	heart
2	chr4:148652400-148657800	Active TSS	Aorta	Aorta
3	chr4:148654600-148658200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr4:148654800-148658000	Enhancers	Fetal Intestine Large	intestine
5	chr4:148654800-148658200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
6	chr4:148654800-148658200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
7	chr4:148654800-148658200	Enhancers	Placenta Amnion	Placenta Amnion
8	chr4:148655000-148657800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
9	chr4:148655200-148658200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr4:148655400-148657200	Enhancers	Fetal Kidney	kidney
11	chr4:148655400-148657400	Active TSS	Esophagus	oesophagus
12	chr4:148655400-148658000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr4:148655400-148658000	Enhancers	A549	lung
14	chr4:148655400-148662600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr4:148655400-148662600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr4:148655600-148658200	Enhancers	HMEC	breast
17	chr4:148655600-148662600	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr4:148655600-148662800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr4:148655600-148681600	Weak transcription	Fetal Muscle Trunk	muscle
20	chr4:148655800-148658000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr4:148655800-148658200	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr4:148655800-148658200	Enhancers	Hela-S3	cervix
23	chr4:148655800-148660200	Weak transcription	Placenta	Placenta
24	chr4:148655800-148663400	Enhancers	Fetal Heart	heart
25	chr4:148655800-148665600	Weak transcription	Lung	lung
26	chr4:148656000-148659200	Enhancers	Adipose Nuclei	Adipose
27	chr4:148656000-148659400	Enhancers	Skeletal Muscle Male	skeletal muscle
28	chr4:148656000-148660000	Enhancers	Colon Smooth Muscle	Colon
29	chr4:148656000-148662400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
30	chr4:148656200-148657400	Enhancers	Fetal Intestine Small	intestine
31	chr4:148656400-148657800	Flanking Active TSS	HUVEC	blood vessel
32	chr4:148656400-148658000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr4:148656400-148658200	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
34	chr4:148656400-148658200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr4:148656400-148658800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr4:148656600-148657200	Active TSS	Duodenum Smooth Muscle	Duodenum
37	chr4:148656600-148657400	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
38	chr4:148656600-148657400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr4:148656600-148657400	Active TSS	GM12878-XiMat	blood
40	chr4:148656600-148657800	Enhancers	ES-I3 Cell Line	embryonic stem cell
41	chr4:148656600-148658000	Flanking Active TSS	Osteobl	bone
42	chr4:148656600-148661800	Weak transcription	Fetal Lung	lung
43	chr4:148656600-148676800	Weak transcription	Duodenum Mucosa	Duodenum
44	chr4:148656800-148657200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr4:148656800-148657200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr4:148656800-148657200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr4:148656800-148657400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr4:148656800-148657600	Flanking Active TSS	NH-A	brain
49	chr4:148656800-148657800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
50	chr4:148656800-148657800	Active TSS	Stomach Smooth Muscle	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links