Variant report

Variant	rs619196
Chromosome Location	chr15:33866300-33866301
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 102 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs1025578	0.94[EUR][1000 genomes]
rs1025579	0.94[CEU][hapmap];0.94[EUR][1000 genomes]
rs1025581	0.89[CEU][hapmap];0.95[EUR][1000 genomes]
rs1030770	0.85[JPT][hapmap]
rs1030771	0.86[JPT][hapmap]
rs11630933	0.86[JPT][hapmap]
rs11633042	0.88[ASN][1000 genomes]
rs11634054	0.91[JPT][hapmap]
rs11635764	0.94[EUR][1000 genomes]
rs11639327	0.88[CEU][hapmap];0.94[EUR][1000 genomes]
rs12439812	0.86[JPT][hapmap]
rs12899789	0.90[JPT][hapmap]
rs12903310	0.92[EUR][1000 genomes]
rs12909241	0.94[CEU][hapmap];0.95[EUR][1000 genomes]
rs1369305	0.94[CEU][hapmap];0.94[TSI][hapmap];0.94[EUR][1000 genomes]
rs1369306	0.89[CEU][hapmap];0.94[EUR][1000 genomes]
rs1369310	0.91[JPT][hapmap]
rs1435097	0.86[MEX][hapmap]
rs1435099	0.89[CEU][hapmap];0.88[TSI][hapmap];0.93[EUR][1000 genomes]
rs1435100	0.86[MEX][hapmap]
rs1435101	0.94[CEU][hapmap];0.95[EUR][1000 genomes]
rs1435102	0.94[CEU][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes]
rs1435117	0.93[ASN][1000 genomes]
rs1435118	0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1435121	0.86[JPT][hapmap]
rs1435122	0.83[CHD][hapmap];0.94[GIH][hapmap];0.91[JPT][hapmap];0.86[MEX][hapmap]
rs1435123	0.91[JPT][hapmap]
rs1529845	0.89[CEU][hapmap];0.94[EUR][1000 genomes]
rs1529847	0.94[EUR][1000 genomes]
rs1529848	0.89[CEU][hapmap];0.94[TSI][hapmap];0.94[EUR][1000 genomes]
rs1529850	0.94[EUR][1000 genomes]
rs1560965	0.89[CEU][hapmap];0.94[EUR][1000 genomes]
rs1579583	0.82[ASN][1000 genomes]
rs1594955	0.91[JPT][hapmap]
rs16972317	0.86[ASW][hapmap];0.81[LWK][hapmap]
rs1865496	0.89[CEU][hapmap];0.94[EUR][1000 genomes]
rs1865499	0.91[JPT][hapmap]
rs2060453	0.86[JPT][hapmap]
rs2339307	0.83[CHD][hapmap];0.97[GIH][hapmap];0.91[JPT][hapmap];0.86[MEX][hapmap]
rs2339308	0.91[EUR][1000 genomes]
rs2339309	0.91[JPT][hapmap]
rs2339310	0.83[CHD][hapmap];0.97[GIH][hapmap];0.91[JPT][hapmap];0.86[MEX][hapmap]
rs2437136	0.97[ASN][1000 genomes]
rs2643365	0.91[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs3794582	0.94[EUR][1000 genomes]
rs3829476	0.91[JPT][hapmap]
rs3829477	0.91[JPT][hapmap]
rs3829478	0.91[JPT][hapmap]
rs4503763	0.91[JPT][hapmap]
rs4779620	0.91[EUR][1000 genomes]
rs4780123	0.94[EUR][1000 genomes]
rs4780125	0.89[CEU][hapmap];0.94[EUR][1000 genomes]
rs56132512	0.85[AFR][1000 genomes]
rs589134	0.98[ASN][1000 genomes]
rs603657	0.93[ASN][1000 genomes]
rs604934	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs605682	0.96[ASN][1000 genomes]
rs606639	0.95[CHB][hapmap];0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs620150	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs620644	0.93[ASN][1000 genomes]
rs622365	0.98[ASN][1000 genomes]
rs666342	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs674155	0.95[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs680388	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs680792	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs680851	0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs682639	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs683141	0.98[ASN][1000 genomes]
rs683484	0.95[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs683553	0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7162590	0.92[EUR][1000 genomes]
rs7164455	0.91[JPT][hapmap]
rs7165400	0.82[EUR][1000 genomes]
rs7167772	0.88[YRI][hapmap];0.82[AFR][1000 genomes]
rs7167970	0.92[ASN][1000 genomes]
rs7169123	0.91[ASN][1000 genomes]
rs7170881	0.90[JPT][hapmap]
rs7172763	0.91[JPT][hapmap]
rs7178813	0.91[AFR][1000 genomes]
rs7179398	0.81[EUR][1000 genomes]
rs7183338	0.91[AFR][1000 genomes]
rs721667	0.91[JPT][hapmap]
rs753945	0.91[LWK][hapmap];0.82[MKK][hapmap];0.88[YRI][hapmap]
rs8023957	0.88[YRI][hapmap]
rs8030946	1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.98[ASN][1000 genomes]
rs8030964	0.95[LWK][hapmap];0.92[MKK][hapmap];0.88[YRI][hapmap];0.91[AFR][1000 genomes]
rs8033477	0.91[JPT][hapmap]
rs8039203	0.88[YRI][hapmap]
rs8040445	0.89[CEU][hapmap];0.91[EUR][1000 genomes]
rs8041171	0.95[LWK][hapmap];0.96[MKK][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs9302270	0.86[EUR][1000 genomes]
rs9302271	0.94[CEU][hapmap];0.94[EUR][1000 genomes]
rs9635321	0.91[ASN][1000 genomes]
rs967091	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs968275	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9806564	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9806613	0.83[AMR][1000 genomes];0.84[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	nsv1043046	chr15:33714908-34321330	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	esv34041	chr15:33720726-33871487	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	esv34037	chr15:33732616-34049083	Enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	esv14938	chr15:33863708-33866938	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv13885	chr15:33865333-33866938	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs619196	NDNL2	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33827400-33877200	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr15:33846400-33872000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr15:33858000-33921200	Weak transcription	Stomach Smooth Muscle	stomach
4	chr15:33858600-33895200	Weak transcription	Fetal Muscle Leg	muscle
5	chr15:33859200-33923200	Weak transcription	Fetal Muscle Trunk	muscle
6	chr15:33860200-33867200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr15:33866200-33866400	Enhancers	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links