Variant report

Variant	rs310334
Chromosome Location	chr16:71573547-71573548
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr16:71517012..71519976-chr16:71570719..71575541,6	MCF-7	breast:
2	chr16:71572964..71574516-chr16:71664027..71666330,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000157429	Chromatin interaction

Extended variants
information (count: 61 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10500558	0.96[ASN][1000 genomes]
rs11640165	0.96[ASN][1000 genomes]
rs11641492	0.96[ASN][1000 genomes]
rs11643216	0.96[ASN][1000 genomes]
rs11647749	0.97[ASN][1000 genomes]
rs12446461	1.00[CEU][hapmap];0.82[CHB][hapmap];0.83[YRI][hapmap];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13331346	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1609868	0.83[JPT][hapmap];0.86[ASN][1000 genomes]
rs1609869	0.94[CHD][hapmap];0.89[JPT][hapmap];0.89[ASN][1000 genomes]
rs172649	0.81[CHD][hapmap]
rs2004672	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2070832	0.91[CEU][hapmap];0.83[CHD][hapmap];0.83[GIH][hapmap];0.83[JPT][hapmap];0.88[MEX][hapmap];0.81[TSI][hapmap];0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs2288486	0.83[CHB][hapmap];0.92[CHD][hapmap];0.85[GIH][hapmap];0.83[JPT][hapmap];0.80[MEX][hapmap];0.91[ASN][1000 genomes]
rs2288487	0.89[CHB][hapmap];0.92[CHD][hapmap];0.87[ASN][1000 genomes]
rs2288488	0.91[ASN][1000 genomes]
rs2288489	0.85[LWK][hapmap];0.91[YRI][hapmap]
rs2303788	0.97[CHD][hapmap];0.84[JPT][hapmap];0.90[ASN][1000 genomes]
rs2432524	0.83[GIH][hapmap]
rs28372238	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35373081	0.88[ASN][1000 genomes]
rs35916432	0.89[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3813743	1.00[ASW][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];0.83[JPT][hapmap];0.86[LWK][hapmap];0.86[TSI][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4149498	0.89[CHB][hapmap];1.00[CHD][hapmap];0.89[JPT][hapmap];0.96[ASN][1000 genomes]
rs4503795	0.90[ASN][1000 genomes]
rs4620964	0.91[CEU][hapmap];0.84[AMR][1000 genomes]
rs58134724	0.90[ASN][1000 genomes]
rs58452291	0.84[ASN][1000 genomes]
rs58719913	0.96[ASN][1000 genomes]
rs59819114	0.83[ASN][1000 genomes]
rs6499523	1.00[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap]
rs7184543	0.89[CHB][hapmap];0.97[CHD][hapmap];0.89[JPT][hapmap];0.97[ASN][1000 genomes]
rs7186241	0.97[ASN][1000 genomes]
rs7187165	0.89[CHB][hapmap];0.94[CHD][hapmap];0.83[JPT][hapmap];0.91[ASN][1000 genomes]
rs7187354	0.83[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];0.83[JPT][hapmap];0.87[MEX][hapmap];0.86[TSI][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7188342	0.88[CHB][hapmap];0.82[JPT][hapmap];0.91[ASN][1000 genomes]
rs7199026	0.89[CHB][hapmap];0.97[CHD][hapmap];0.89[JPT][hapmap];0.97[ASN][1000 genomes]
rs7199373	0.90[ASN][1000 genomes]
rs7200335	0.92[ASN][1000 genomes]
rs7200431	0.89[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs7202662	0.89[CHB][hapmap];0.97[CHD][hapmap];0.89[JPT][hapmap];0.97[ASN][1000 genomes]
rs7202953	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs730470	0.81[ASN][1000 genomes]
rs732318	0.87[ASW][hapmap];1.00[CEU][hapmap];0.92[CHD][hapmap];0.92[GIH][hapmap];0.92[MEX][hapmap];0.89[TSI][hapmap];0.83[YRI][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs74026831	0.97[ASN][1000 genomes]
rs74027246	0.96[ASN][1000 genomes]
rs8044068	0.98[ASN][1000 genomes]
rs8044561	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8051212	0.87[ASW][hapmap];1.00[CEU][hapmap];0.83[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];0.84[JPT][hapmap];0.81[LWK][hapmap];0.88[MEX][hapmap];0.87[TSI][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8053662	0.96[ASN][1000 genomes]
rs8058294	0.88[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs8058776	0.89[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs8061078	1.00[CEU][hapmap];0.83[CHB][hapmap];0.91[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9302623	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9926110	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9928243	0.89[CHB][hapmap];0.97[CHD][hapmap];0.89[JPT][hapmap];0.95[ASN][1000 genomes]
rs9933680	0.89[CHB][hapmap];1.00[CHD][hapmap];0.84[JPT][hapmap];0.94[ASN][1000 genomes]
rs9935426	0.89[CHB][hapmap];0.94[CHD][hapmap];0.83[JPT][hapmap];0.91[ASN][1000 genomes]
rs9936249	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];0.83[JPT][hapmap];0.89[LWK][hapmap];0.92[MEX][hapmap];0.86[TSI][hapmap];0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9940771	0.83[CEU][hapmap];0.89[CHB][hapmap];0.83[JPT][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][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	nsv949461	chr16:71196153-71579711	ZNF genes & repeats Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
2	esv3347477	chr16:71555148-71985177	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs310334	DYNC1LI2	cis	cerebellum	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:71560600-71583400	Weak transcription	Pancreas	Pancrea
2	chr16:71561000-71582400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr16:71561200-71576400	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr16:71573000-71573800	Enhancers	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links