Variant report

Variant	rs1889168
Chromosome Location	chr13:39792426-39792427
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	chr13:39788555..39790778-chr13:39791862..39793526,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LHFP-2	chr13:39790914-39793642	XLOC_010575

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1577030	0.92[ASN][1000 genomes]
rs2026522	0.84[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs4328312	0.90[CHB][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs4362261	0.96[ASN][1000 genomes]
rs4435117	0.88[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.85[YRI][hapmap];0.87[ASN][1000 genomes]
rs4491375	0.92[EUR][1000 genomes]
rs544151	0.94[ASN][1000 genomes]
rs60345209	0.92[ASN][1000 genomes]
rs7328575	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7330119	0.96[EUR][1000 genomes]
rs7330627	0.92[ASN][1000 genomes]
rs7982642	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7988999	0.87[ASN][1000 genomes]
rs8000494	0.93[EUR][1000 genomes]
rs9315663	0.95[ASN][1000 genomes]
rs9315665	0.95[EUR][1000 genomes]
rs9532346	0.95[ASN][1000 genomes]
rs9532349	0.95[ASN][1000 genomes]
rs9532350	0.94[ASN][1000 genomes]
rs9532351	0.93[ASN][1000 genomes]
rs9532352	0.95[ASN][1000 genomes]
rs9532353	0.93[ASN][1000 genomes]
rs9532354	0.96[ASN][1000 genomes]
rs9532359	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9548668	0.89[ASN][1000 genomes]
rs9548669	0.94[ASN][1000 genomes]
rs9548670	0.95[ASN][1000 genomes]
rs9548673	0.95[ASN][1000 genomes]
rs9548674	0.95[ASN][1000 genomes]
rs9548676	0.95[ASN][1000 genomes]
rs9548677	0.95[ASN][1000 genomes]
rs9548678	0.95[ASN][1000 genomes]
rs9548679	0.95[ASN][1000 genomes]
rs9548680	0.95[ASN][1000 genomes]
rs9548681	0.93[ASN][1000 genomes]
rs9548682	0.93[ASN][1000 genomes]
rs9548683	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9548692	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9548693	0.90[ASN][1000 genomes]
rs9548695	0.92[ASN][1000 genomes]
rs9548697	0.90[ASN][1000 genomes]
rs9548698	0.90[ASN][1000 genomes]
rs9548699	0.88[ASN][1000 genomes]
rs9566412	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9576758	0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2754118	chr13:39347702-40222644	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1048391	chr13:39735088-39832358	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1036124	chr13:39735088-39837566	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv1047276	chr13:39735088-39839257	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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