Variant report

Variant	rs4647404
Chromosome Location	chr9:98031759-98031760
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	chr9:98024543..98026089-chr9:98030746..98033601,2	K562	blood:
2	chr9:98026486..98029040-chr9:98031482..98033192,3	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10283758	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993475	0.82[EUR][1000 genomes]
rs10993479	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10993483	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10993503	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993520	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1105979	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12337959	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12338907	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12339700	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12341302	0.82[EUR][1000 genomes]
rs12342782	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12350646	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12352586	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12377946	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17679141	0.96[CEU][hapmap];0.96[GIH][hapmap];0.88[MEX][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap]
rs1886992	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1889241	0.96[CEU][hapmap];0.96[GIH][hapmap];0.89[MEX][hapmap];1.00[MKK][hapmap];0.92[TSI][hapmap];0.82[EUR][1000 genomes]
rs28658564	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs356659	0.88[TSI][hapmap]
rs4237226	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4647372	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4647373	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4647401	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4647421	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4647432	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4647441	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743990	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4744443	0.96[CEU][hapmap]
rs4744444	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs4744445	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4744453	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4744457	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4744458	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4744460	0.82[AMR][1000 genomes]
rs554879	0.84[TSI][hapmap]
rs56134407	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62560523	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62560524	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs640628	0.84[TSI][hapmap]
rs7357617	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs879559	0.92[CEU][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[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	nsv831657	chr9:97959274-98204769	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98024200-98034600	Weak transcription	Esophagus	oesophagus
2	chr9:98027000-98034200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr9:98027600-98033800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr9:98027800-98032400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr9:98028000-98031800	Weak transcription	Small Intestine	intestine
6	chr9:98028000-98032800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr9:98028200-98032600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr9:98028400-98032400	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr9:98028400-98045400	Weak transcription	Gastric	stomach
10	chr9:98029400-98038200	Weak transcription	Primary T cells from cord blood	blood
11	chr9:98029600-98031800	Weak transcription	Duodenum Mucosa	Duodenum
12	chr9:98030200-98032400	Enhancers	HepG2	liver
13	chr9:98030400-98032600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr9:98030400-98035400	Weak transcription	GM12878-XiMat	blood
15	chr9:98030800-98033200	Enhancers	Fetal Stomach	stomach
16	chr9:98031000-98031800	Enhancers	Cortex derived primary cultured neurospheres	brain
17	chr9:98031000-98032800	Enhancers	Fetal Kidney	kidney
18	chr9:98031000-98033400	Enhancers	Fetal Intestine Small	intestine
19	chr9:98031000-98033400	Enhancers	A549	lung
20	chr9:98031200-98031800	Enhancers	HUES64 Cell Line	embryonic stem cell
21	chr9:98031200-98031800	Weak transcription	Pancreas	Pancrea
22	chr9:98031200-98031800	Enhancers	Rectal Mucosa Donor 31	rectum
23	chr9:98031200-98032000	Enhancers	Pancreatic Islets	Pancreatic Islet
24	chr9:98031200-98032800	Weak transcription	Fetal Lung	lung
25	chr9:98031200-98033000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr9:98031200-98033000	Enhancers	Liver	Liver
27	chr9:98031200-98033400	Enhancers	Fetal Intestine Large	intestine
28	chr9:98031200-98034800	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr9:98031400-98031800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr9:98031400-98032000	Enhancers	Sigmoid Colon	Sigmoid Colon
31	chr9:98031600-98032400	Weak transcription	Stomach Mucosa	stomach

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