Variant report

Variant	rs7272156
Chromosome Location	chr20:13606899-13606900
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:13604911..13607863-chr20:13611443..13613306,2	K562	blood:
2	chr20:13606363..13608023-chr20:13611661..13613306,2	K562	blood:
3	chr20:13606234..13607847-chr20:13615873..13617564,2	K562	blood:

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1973948	1.00[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2295505	0.93[EUR][1000 genomes]
rs2295506	0.93[EUR][1000 genomes]
rs34920916	0.89[EUR][1000 genomes]
rs6033772	0.88[EUR][1000 genomes]
rs6033777	0.90[EUR][1000 genomes]
rs6033778	0.94[EUR][1000 genomes]
rs6033779	0.93[EUR][1000 genomes]
rs6042245	0.86[EUR][1000 genomes]
rs6042256	0.94[EUR][1000 genomes]
rs6042261	0.95[EUR][1000 genomes]
rs6042262	0.92[EUR][1000 genomes]
rs6042269	0.95[EUR][1000 genomes]
rs6105142	0.89[EUR][1000 genomes]
rs6131494	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6131495	0.95[EUR][1000 genomes]
rs6134907	0.83[AFR][1000 genomes]
rs6134908	0.83[AFR][1000 genomes]
rs6134911	0.83[AFR][1000 genomes]
rs6134918	0.97[AFR][1000 genomes]
rs6134928	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6134931	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6134937	0.89[EUR][1000 genomes]
rs6134938	0.93[EUR][1000 genomes]
rs6134941	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6514424	0.93[EUR][1000 genomes]
rs7273818	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73088095	0.86[EUR][1000 genomes]
rs73090125	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1061303	chr20:13395546-13810990	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv916202	chr20:13421724-14043615	Flanking Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv1059817	chr20:13422602-13807968	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1066810	chr20:13451869-14432454	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	esv1797514	chr20:13541011-13610424	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv1061323	chr20:13551004-13746346	Strong transcription ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv912689	chr20:13570331-14155881	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	nsv531478	chr20:13580524-13814797	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	nsv1059221	chr20:13589432-13977327	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7272156	TASP1	cis	lung	GTEx

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:13526800-13613800	Weak transcription	Hela-S3	cervix
2	chr20:13535600-13608000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr20:13556200-13618800	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr20:13563800-13619000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr20:13564000-13612400	Weak transcription	Pancreas	Pancrea
6	chr20:13564200-13608400	Weak transcription	HSMM	muscle
7	chr20:13567200-13608600	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr20:13567200-13618600	Weak transcription	Adipose Nuclei	Adipose
9	chr20:13567400-13608400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr20:13567400-13608400	Weak transcription	HMEC	breast
11	chr20:13567600-13608600	Weak transcription	Fetal Muscle Trunk	muscle
12	chr20:13568000-13608400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr20:13568400-13607200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr20:13572000-13607800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr20:13573600-13609400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr20:13582600-13608000	Weak transcription	HSMMtube	muscle
17	chr20:13583200-13607200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr20:13583200-13607200	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr20:13583400-13607000	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr20:13584000-13617800	Weak transcription	Aorta	Aorta
21	chr20:13585000-13610600	Weak transcription	Psoas Muscle	Psoas
22	chr20:13585200-13609000	Weak transcription	Fetal Muscle Leg	muscle
23	chr20:13586600-13608600	Weak transcription	GM12878-XiMat	blood
24	chr20:13587000-13618000	Weak transcription	Fetal Brain Male	brain
25	chr20:13588000-13618600	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr20:13588600-13609200	Weak transcription	Left Ventricle	heart
27	chr20:13589800-13608400	Weak transcription	Osteobl	bone
28	chr20:13590800-13617800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr20:13591200-13619000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr20:13592200-13617800	Weak transcription	Small Intestine	intestine
31	chr20:13594400-13618600	Weak transcription	Brain Cingulate Gyrus	brain
32	chr20:13595400-13618200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr20:13595600-13618200	Weak transcription	Colon Smooth Muscle	Colon
34	chr20:13596000-13607800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr20:13596000-13608400	Weak transcription	Muscle Satellite Cultured Cells	--
36	chr20:13596200-13618200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
37	chr20:13596600-13608800	Weak transcription	Brain Inferior Temporal Lobe	brain
38	chr20:13596600-13609400	Weak transcription	Fetal Brain Female	brain
39	chr20:13596600-13618000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
40	chr20:13597400-13618800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr20:13597600-13607200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr20:13597800-13608200	Weak transcription	Duodenum Mucosa	Duodenum
43	chr20:13597800-13608400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr20:13598200-13618800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr20:13599000-13618600	Weak transcription	Fetal Intestine Small	intestine
46	chr20:13600800-13608000	Weak transcription	Fetal Stomach	stomach
47	chr20:13601000-13618400	Weak transcription	NHLF	lung
48	chr20:13601400-13608800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
49	chr20:13601400-13611400	Weak transcription	Brain Substantia Nigra	brain
50	chr20:13601600-13618200	Weak transcription	Brain Germinal Matrix	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links