Variant report

Variant	rs61747285
Chromosome Location	chr1:210004332-210004333
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:210002486..210004655-chr1:210015863..210018980,3	K562	blood:

Extended variants
information (count: 48 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1073150	0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11803382	0.93[ASN][1000 genomes]
rs11805830	0.93[ASN][1000 genomes]
rs1319072	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1319435	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1415543	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17015218	0.90[ASN][1000 genomes]
rs17015224	0.90[ASN][1000 genomes]
rs17015226	0.90[ASN][1000 genomes]
rs17015309	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17015330	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17015361	0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17015379	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17317411	0.84[EUR][1000 genomes]
rs2205984	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2206043	0.87[EUR][1000 genomes]
rs2357230	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35508116	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3753518	0.88[ASN][1000 genomes]
rs41305104	0.84[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs4556361	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55871867	0.86[AMR][1000 genomes]
rs57315825	0.85[EUR][1000 genomes]
rs58637469	0.90[ASN][1000 genomes]
rs59100111	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59435160	0.85[EUR][1000 genomes]
rs60326345	0.85[EUR][1000 genomes]
rs6540560	0.93[ASN][1000 genomes]
rs6540561	0.93[ASN][1000 genomes]
rs6540563	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6540564	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6694552	0.88[ASN][1000 genomes]
rs6698154	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73093853	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs735693	0.85[EUR][1000 genomes]
rs735694	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7511996	0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7522045	0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7525951	0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7539638	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7540237	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7550857	0.90[ASN][1000 genomes]
rs7551944	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs926346	0.90[ASN][1000 genomes]
rs926347	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999901	chr1:209600631-210205379	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv1014034	chr1:209759648-210501731	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv873139	chr1:209828955-210050794	Active TSS Enhancers Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs61747285	TRAF3IP3	cis	Whole Blood	GTEx

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:210001800-210010200	Weak transcription	Spleen	Spleen
2	chr1:210001800-210025000	Weak transcription	Stomach Mucosa	stomach
3	chr1:210001800-210034000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr1:210002000-210004800	Weak transcription	Aorta	Aorta
5	chr1:210002000-210006000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr1:210002000-210006000	Weak transcription	Gastric	stomach
7	chr1:210002000-210006200	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr1:210002000-210006400	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr1:210002000-210006600	Weak transcription	Esophagus	oesophagus
10	chr1:210002000-210006600	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr1:210002000-210007000	Weak transcription	Colonic Mucosa	Colon
12	chr1:210002000-210007000	Weak transcription	Thymus	Thymus
13	chr1:210002000-210007200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr1:210002000-210011200	Weak transcription	Primary neutrophils fromperipheralblood	blood
15	chr1:210002000-210015600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr1:210002000-210023800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr1:210002200-210005600	Weak transcription	Fetal Intestine Small	intestine
18	chr1:210002200-210006600	Weak transcription	Right Ventricle	heart
19	chr1:210002400-210004600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr1:210002400-210032000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr1:210002600-210006600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr1:210002800-210004400	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr1:210003000-210004400	Weak transcription	Placenta	Placenta
24	chr1:210003000-210004400	Genic enhancers	Dnd41	blood
25	chr1:210003000-210005200	Genic enhancers	NHEK	skin
26	chr1:210003000-210006000	Weak transcription	Fetal Stomach	stomach
27	chr1:210003000-210006200	Weak transcription	Lung	lung
28	chr1:210003000-210009800	Weak transcription	Small Intestine	intestine
29	chr1:210003000-210011000	Weak transcription	Fetal Heart	heart
30	chr1:210003000-210013200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr1:210003200-210005000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr1:210003200-210006600	Weak transcription	Fetal Brain Male	brain
33	chr1:210003200-210006800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr1:210003200-210007600	Weak transcription	Psoas Muscle	Psoas
35	chr1:210003200-210017400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr1:210003200-210027800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr1:210003200-210028600	Strong transcription	Primary T cells fromperipheralblood	blood
38	chr1:210003200-210029400	Strong transcription	Fetal Muscle Trunk	muscle
39	chr1:210003400-210006200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
40	chr1:210003400-210028000	Strong transcription	Monocytes-CD14+_RO01746	blood
41	chr1:210003400-210028400	Strong transcription	Primary B cells from peripheral blood	blood
42	chr1:210003600-210004400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
43	chr1:210003600-210004400	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr1:210003600-210004400	Weak transcription	GM12878-XiMat	blood
45	chr1:210003600-210004800	Weak transcription	Fetal Brain Female	brain
46	chr1:210003600-210005400	Genic enhancers	HUVEC	blood vessel
47	chr1:210003600-210012200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr1:210003600-210028000	Strong transcription	HUES64 Cell Line	embryonic stem cell
49	chr1:210003800-210004600	Genic enhancers	Primary T helper cells fromperipheralblood	blood
50	chr1:210003800-210005000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links