Variant report

Variant	rs2181033
Chromosome Location	chr9:117697831-117697832
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1006025	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1006026	0.96[ASN][1000 genomes]
rs1006027	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10081728	0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10817683	0.96[ASN][1000 genomes]
rs10817684	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10817685	0.82[ASN][1000 genomes]
rs10982449	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10982450	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10982451	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10982453	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10982454	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10982455	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1322058	0.86[ASW][hapmap];0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];0.89[JPT][hapmap];0.84[LWK][hapmap];0.96[MEX][hapmap];0.84[MKK][hapmap];0.83[TSI][hapmap];0.90[YRI][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1322059	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1322060	1.00[CHB][hapmap];0.97[CHD][hapmap];0.88[GIH][hapmap];0.94[JPT][hapmap];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1555456	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17292087	0.86[ASW][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];0.86[LWK][hapmap];0.91[MEX][hapmap];0.93[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2075533	0.82[EUR][1000 genomes]
rs2075534	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2208640	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3181195	0.86[ASW][hapmap];0.83[CEU][hapmap];0.90[CHB][hapmap];0.97[CHD][hapmap];0.86[LWK][hapmap];0.92[MEX][hapmap];0.93[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3181348	0.82[EUR][1000 genomes]
rs3181363	0.83[CEU][hapmap];0.90[CHB][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3181364	0.83[CEU][hapmap];0.90[CHB][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3181366	0.83[CEU][hapmap];0.90[CHB][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3181368	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3181369	0.86[ASW][hapmap];0.85[CHB][hapmap];0.94[CHD][hapmap];0.86[LWK][hapmap];0.92[MEX][hapmap];0.93[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3181370	0.91[CEU][hapmap];0.90[CHB][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3181371	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4979473	0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7028578	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7036962	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7037640	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs726656	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs726657	1.00[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];0.94[JPT][hapmap];0.80[MEX][hapmap];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7872878	0.95[ASN][1000 genomes]
rs911603	0.85[EUR][1000 genomes]
rs927373	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs927375	0.85[EUR][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	nsv831695	chr9:117567626-117726247	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv6680	chr9:117690388-117699304	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2181033	SNORA70C	cis	cerebellum	SCAN
rs2181033	ASTN2	cis	cerebellum	SCAN
rs2181033	KIAA1958	cis	parietal	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:117693800-117698800	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr9:117694000-117698600	Weak transcription	Primary monocytes fromperipheralblood	blood
3	chr9:117694200-117699600	Weak transcription	Primary hematopoietic stem cells	blood
4	chr9:117694400-117698800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr9:117694400-117700200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr9:117695000-117698600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr9:117695000-117700200	Weak transcription	Primary T helper cells PMA-I stimulated	--
8	chr9:117695200-117700800	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr9:117695600-117701000	Weak transcription	Thymus	Thymus
10	chr9:117696200-117698600	Enhancers	Fetal Lung	lung
11	chr9:117697200-117698800	Enhancers	Adipose Nuclei	Adipose
12	chr9:117697600-117699800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr9:117697800-117698200	Enhancers	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links