Variant report

Variant	rs9977019
Chromosome Location	chr21:17248174-17248175
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	chr21:17247179-17248487	K562	blood:	n/a	n/a

Variant related genes	Relation type
USP25	TF binding region

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11909322	1.00[AMR][1000 genomes]
rs11909953	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs12106439	0.86[AFR][1000 genomes]
rs17241402	0.84[CHB][hapmap]
rs17307156	0.84[CHB][hapmap]
rs2183553	0.93[ASN][1000 genomes]
rs2823464	0.81[CHB][hapmap]
rs2823477	0.93[CHB][hapmap]
rs2823479	0.93[CHB][hapmap]
rs2823480	0.93[CHB][hapmap]
rs2823487	0.93[CHB][hapmap]
rs2823488	0.92[CHB][hapmap];0.82[ASN][1000 genomes]
rs28417441	0.86[AFR][1000 genomes]
rs28484960	0.94[ASN][1000 genomes]
rs28553297	0.94[ASN][1000 genomes]
rs28691102	0.86[AFR][1000 genomes]
rs55804442	0.82[ASN][1000 genomes]
rs60174740	0.82[ASN][1000 genomes]
rs6517612	0.92[CHB][hapmap]
rs73348818	1.00[ASN][1000 genomes]
rs7364033	1.00[YRI][hapmap]
rs73892561	1.00[ASN][1000 genomes]
rs8130607	0.84[CHB][hapmap]
rs8132755	0.94[ASN][1000 genomes]
rs9305754	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs995121	0.83[YRI][hapmap]
rs9975374	0.91[ASN][1000 genomes]
rs9975855	1.00[YRI][hapmap]
rs9980591	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9982630	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9984651	0.90[ASN][1000 genomes]
rs9985029	0.89[AFR][1000 genomes];1.00[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:123 , 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	chr21:17188400-17253200	Weak transcription	Fetal Brain Female	brain
5	chr21:17188800-17252600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr21:17204600-17252800	Weak transcription	Brain Hippocampus Middle	brain
7	chr21:17210400-17252600	Weak transcription	Aorta	Aorta
8	chr21:17215600-17252200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr21:17221000-17252800	Weak transcription	Thymus	Thymus
10	chr21:17222200-17252600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr21:17223000-17257200	Weak transcription	NHLF	lung
12	chr21:17223600-17264400	Weak transcription	NHEK	skin
13	chr21:17225200-17252800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr21:17228200-17256800	Weak transcription	Small Intestine	intestine
15	chr21:17228400-17252800	Weak transcription	Fetal Heart	heart
16	chr21:17228400-17252800	Weak transcription	Psoas Muscle	Psoas
17	chr21:17233400-17256600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr21:17234800-17252800	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr21:17235200-17252800	Strong transcription	Primary T helper cells PMA-I stimulated	--
20	chr21:17235200-17255600	Strong transcription	Primary monocytes fromperipheralblood	blood
21	chr21:17235800-17252200	Strong transcription	HUES64 Cell Line	embryonic stem cell
22	chr21:17235800-17252800	Strong transcription	Monocytes-CD14+_RO01746	blood
23	chr21:17236400-17251200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr21:17236400-17253800	Strong transcription	Primary T helper cells fromperipheralblood	blood
25	chr21:17236600-17254600	Strong transcription	Primary T cells fromperipheralblood	blood
26	chr21:17237000-17254400	Strong transcription	Placenta	Placenta
27	chr21:17237600-17252000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr21:17237800-17252800	Strong transcription	Adipose Nuclei	Adipose
29	chr21:17237800-17252800	Strong transcription	Liver	Liver
30	chr21:17239800-17252800	Weak transcription	Brain Substantia Nigra	brain
31	chr21:17240600-17252800	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr21:17241400-17250600	Weak transcription	K562	blood
33	chr21:17242200-17252000	Strong transcription	Dnd41	blood
34	chr21:17243000-17251400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr21:17244400-17252800	Strong transcription	Primary neutrophils fromperipheralblood	blood
36	chr21:17244600-17252200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr21:17245200-17248400	Strong transcription	Skeletal Muscle Male	skeletal muscle
38	chr21:17245200-17249000	Strong transcription	Fetal Kidney	kidney
39	chr21:17245200-17251200	Strong transcription	Duodenum Mucosa	Duodenum
40	chr21:17245200-17252800	Strong transcription	Primary B cells from cord blood	blood
41	chr21:17245400-17248400	Strong transcription	Fetal Intestine Large	intestine
42	chr21:17245400-17249400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr21:17245400-17251200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr21:17245400-17251200	Strong transcription	Fetal Muscle Trunk	muscle
45	chr21:17245400-17251200	Strong transcription	Fetal Thymus	thymus
46	chr21:17245400-17252600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr21:17245400-17252800	Strong transcription	HUES48 Cell Line	embryonic stem cell
48	chr21:17245400-17252800	Strong transcription	Primary B cells from peripheral blood	blood
49	chr21:17245400-17252800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
50	chr21:17245400-17252800	Strong transcription	Duodenum Smooth Muscle	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links