Variant report

Variant	rs9985029
Chromosome Location	chr21:17245955-17245956
allele	A/G
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	POLR2A	chr21:17245932-17246017	ProgFib	skin:	n/a	n/a
2	POLR2A	chr21:17245945-17245985	MCF-7	breast:	n/a	n/a

Variant related genes	Relation type
USP25	TF binding region

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11909953	0.93[ASN][1000 genomes]
rs12106439	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2183553	0.93[ASN][1000 genomes]
rs2823488	0.82[ASN][1000 genomes]
rs28417441	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28484960	0.94[ASN][1000 genomes]
rs28553297	0.94[ASN][1000 genomes]
rs28691102	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28804988	0.85[AFR][1000 genomes]
rs55804442	0.82[ASN][1000 genomes]
rs60174740	0.82[ASN][1000 genomes]
rs73348818	1.00[ASN][1000 genomes]
rs73892561	1.00[ASN][1000 genomes]
rs8132755	0.94[ASN][1000 genomes]
rs9305754	0.97[ASN][1000 genomes]
rs9975374	0.91[ASN][1000 genomes]
rs9977019	0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9980591	0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9982630	0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9984651	0.90[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834050	chr21:17146090-17348951	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:17155200-17252800	Weak transcription	Fetal Brain Male	brain
2	chr21:17178400-17248200	Weak transcription	Esophagus	oesophagus
3	chr21:17178400-17252800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr21:17188200-17246800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr21:17188400-17247200	Weak transcription	Ovary	ovary
6	chr21:17188400-17253200	Weak transcription	Fetal Brain Female	brain
7	chr21:17188800-17247000	Weak transcription	Brain Germinal Matrix	brain
8	chr21:17188800-17252600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr21:17190200-17247200	Weak transcription	Pancreas	Pancrea
10	chr21:17190400-17247200	Weak transcription	Spleen	Spleen
11	chr21:17190400-17247400	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr21:17198000-17248000	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr21:17199800-17246800	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr21:17199800-17247200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr21:17204400-17246400	Weak transcription	Brain Angular Gyrus	brain
16	chr21:17204400-17246800	Weak transcription	Brain Anterior Caudate	brain
17	chr21:17204600-17247800	Weak transcription	HepG2	liver
18	chr21:17204600-17252800	Weak transcription	Brain Hippocampus Middle	brain
19	chr21:17210400-17252600	Weak transcription	Aorta	Aorta
20	chr21:17210600-17247200	Weak transcription	Rectal Smooth Muscle	rectum
21	chr21:17211000-17246600	Weak transcription	Colon Smooth Muscle	Colon
22	chr21:17215600-17252200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr21:17221000-17252800	Weak transcription	Thymus	Thymus
24	chr21:17222000-17246600	Weak transcription	HMEC	breast
25	chr21:17222200-17252600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr21:17223000-17257200	Weak transcription	NHLF	lung
27	chr21:17223400-17246800	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr21:17223600-17246600	Weak transcription	Osteobl	bone
29	chr21:17223600-17264400	Weak transcription	NHEK	skin
30	chr21:17225200-17252800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr21:17228200-17246800	Weak transcription	NHDF-Ad	bronchial
32	chr21:17228200-17256800	Weak transcription	Small Intestine	intestine
33	chr21:17228400-17252800	Weak transcription	Fetal Heart	heart
34	chr21:17228400-17252800	Weak transcription	Psoas Muscle	Psoas
35	chr21:17230600-17246800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
36	chr21:17233400-17256600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr21:17234800-17252800	Weak transcription	Pancreatic Islets	Pancreatic Islet
38	chr21:17235200-17252800	Strong transcription	Primary T helper cells PMA-I stimulated	--
39	chr21:17235200-17255600	Strong transcription	Primary monocytes fromperipheralblood	blood
40	chr21:17235800-17252200	Strong transcription	HUES64 Cell Line	embryonic stem cell
41	chr21:17235800-17252800	Strong transcription	Monocytes-CD14+_RO01746	blood
42	chr21:17236400-17251200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
43	chr21:17236400-17253800	Strong transcription	Primary T helper cells fromperipheralblood	blood
44	chr21:17236600-17254600	Strong transcription	Primary T cells fromperipheralblood	blood
45	chr21:17237000-17254400	Strong transcription	Placenta	Placenta
46	chr21:17237600-17252000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr21:17237800-17252800	Strong transcription	Adipose Nuclei	Adipose
48	chr21:17237800-17252800	Strong transcription	Liver	Liver
49	chr21:17238000-17246400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
50	chr21:17239800-17252800	Weak transcription	Brain Substantia Nigra	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links