Variant report

Variant	rs657637
Chromosome Location	chr9:97928719-97928720
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:97927437..97930043-chr9:97948954..97951128,2	K562	blood:

Extended variants
information (count: 33 )
Associated
traits (count: 4 )

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

rs_ID	r²[population]
rs1045276	1.00[CEU][hapmap]
rs10491560	1.00[CEU][hapmap]
rs10761376	0.82[EUR][1000 genomes]
rs10821450	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs171417	1.00[CEU][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs184818	1.00[CEU][hapmap];0.81[CHD][hapmap];0.97[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs187172	1.00[MEX][hapmap];0.87[TSI][hapmap];0.89[AMR][1000 genomes]
rs2404692	0.83[TSI][hapmap]
rs356666	1.00[CEU][hapmap];0.81[CHD][hapmap];0.95[GIH][hapmap];0.85[JPT][hapmap];0.85[TSI][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs356669	0.86[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.80[MKK][hapmap];0.92[TSI][hapmap];0.84[YRI][hapmap];0.92[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs356673	1.00[CEU][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs356675	1.00[CEU][hapmap];0.85[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs356677	1.00[CEU][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs356678	1.00[CEU][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs356679	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs356680	1.00[CEU][hapmap];0.81[CHD][hapmap];0.97[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs356682	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs356683	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs356684	1.00[CEU][hapmap];0.85[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs356687	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs356688	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs356689	1.00[CEU][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs416792	1.00[CEU][hapmap];0.85[JPT][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs437511	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4647376	0.81[JPT][hapmap]
rs526189	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs540412	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs565293	1.00[CEU][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs609324	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7033633	1.00[CEU][hapmap];0.92[GIH][hapmap];0.83[MEX][hapmap];0.88[TSI][hapmap]
rs7865753	0.82[EUR][1000 genomes]
rs944934	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.93[EUR][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	nsv831656	chr9:97831551-97989980	Weak transcription Strong transcription Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs657637	SYK	cis	parietal	SCAN
rs657637	NINJ1	cis	cerebellum	SCAN
rs657637	PHF2	cis	cerebellum	SCAN
rs657637	TDRD7	cis	cerebellum	SCAN

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97893800-97940400	Weak transcription	Pancreas	Pancrea
2	chr9:97900800-97930800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr9:97902000-97929800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr9:97906400-97933000	Weak transcription	Fetal Kidney	kidney
5	chr9:97906600-97950200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr9:97910800-97933000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr9:97911200-97930000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr9:97913200-97929000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr9:97913200-97930200	Weak transcription	Primary T cells from cord blood	blood
10	chr9:97913400-97929800	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr9:97920000-97952000	Weak transcription	Aorta	Aorta
12	chr9:97920000-97952000	Weak transcription	Esophagus	oesophagus
13	chr9:97920400-97930400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr9:97920400-97951800	Weak transcription	HepG2	liver
15	chr9:97920600-97930400	Weak transcription	Liver	Liver
16	chr9:97920600-97931000	Weak transcription	Fetal Lung	lung
17	chr9:97920600-97933000	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr9:97920600-97933400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr9:97920800-97931400	Weak transcription	Hela-S3	cervix
20	chr9:97920800-97931400	Weak transcription	K562	blood
21	chr9:97920800-97932800	Weak transcription	GM12878-XiMat	blood
22	chr9:97921200-97930400	Weak transcription	Muscle Satellite Cultured Cells	--
23	chr9:97925600-97930200	Weak transcription	Fetal Muscle Trunk	muscle
24	chr9:97925800-97938000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr9:97925800-97944800	Weak transcription	Duodenum Mucosa	Duodenum
26	chr9:97926000-97929600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr9:97926000-97937800	Weak transcription	Psoas Muscle	Psoas
28	chr9:97926200-97930200	Weak transcription	Fetal Intestine Small	intestine
29	chr9:97926200-97930200	Weak transcription	Fetal Stomach	stomach
30	chr9:97926200-97930400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr9:97926400-97934400	Weak transcription	Primary B cells from cord blood	blood
32	chr9:97926800-97933200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr9:97927600-97950400	Weak transcription	Primary hematopoietic stem cells	blood
34	chr9:97928000-97930200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr9:97928600-97933200	Weak transcription	NHEK	skin

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