Variant report

Variant	rs9848852
Chromosome Location	chr3:155181380-155181381
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10936004	0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11709283	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11709568	0.87[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11714606	0.91[ASN][1000 genomes]
rs12107115	0.95[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs12493778	0.86[CHD][hapmap]
rs12630784	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12631218	1.00[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];0.98[GIH][hapmap];0.93[JPT][hapmap];0.94[MEX][hapmap];0.91[TSI][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12633188	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12633236	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12634171	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12637360	0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs12696031	0.93[CHD][hapmap]
rs13066178	0.88[CHD][hapmap]
rs13074373	0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13080233	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13081656	0.88[CHD][hapmap]
rs13083852	0.88[CHD][hapmap]
rs13093286	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13094738	0.88[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs13100169	0.93[CHD][hapmap]
rs181696	0.85[YRI][hapmap]
rs2351	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];0.93[GIH][hapmap];0.93[JPT][hapmap];0.83[MEX][hapmap];0.91[TSI][hapmap];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2352	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];0.93[GIH][hapmap];0.93[JPT][hapmap];0.91[TSI][hapmap];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28575712	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35259851	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35630673	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36006137	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4679745	0.91[CHB][hapmap];0.93[CHD][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs4679746	1.00[CEU][hapmap];0.91[CHB][hapmap];0.93[JPT][hapmap];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4679747	1.00[CEU][hapmap];0.91[CHB][hapmap];0.93[JPT][hapmap];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4680173	0.88[CHD][hapmap]
rs4680174	0.84[CHD][hapmap]
rs4680176	0.88[CHD][hapmap]
rs4680180	0.91[CHB][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs4680181	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4680182	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4680183	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4680185	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[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56103965	0.85[ASN][1000 genomes]
rs6440985	0.88[CHD][hapmap]
rs6440990	1.00[CEU][hapmap];0.91[CHB][hapmap];0.93[JPT][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6440993	0.87[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6440994	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6440995	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6770715	0.88[MEX][hapmap];0.81[AMR][1000 genomes]
rs6798100	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6802079	0.91[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs6804318	0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6807784	0.88[CHD][hapmap]
rs7615026	0.93[CHD][hapmap]
rs7616618	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7616703	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7618495	0.82[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7643640	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9289955	0.85[ASN][1000 genomes]
rs9809653	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9818939	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs9829532	0.87[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9850280	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9856512	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9869956	0.82[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs9870325	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1000753	chr3:154848433-155207022	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv536773	chr3:154848433-155207022	Enhancers Strong transcription Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv877679	chr3:155128968-155204939	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv437889	chr3:155180174-155185050	Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
5	esv2760765	chr3:155181380-155182467	Weak transcription Enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155173800-155182400	Weak transcription	Gastric	stomach
2	chr3:155175000-155183000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr3:155176000-155183400	Weak transcription	Fetal Intestine Small	intestine
4	chr3:155177600-155186800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr3:155178400-155198800	Weak transcription	Thymus	Thymus
6	chr3:155178800-155183600	Weak transcription	Fetal Thymus	thymus
7	chr3:155179000-155181600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:155179600-155181600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr3:155180800-155181400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr3:155180800-155200200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr3:155181200-155182800	Weak transcription	Dnd41	blood

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