Variant report

Variant	rs17128301
Chromosome Location	chr12:40872856-40872857
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MUC19-1	chr12:40872855-40879178	NONHSAT027728

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11564134	1.00[CEU][hapmap]
rs11564174	1.00[CEU][hapmap]
rs11564254	1.00[CEU][hapmap]
rs11564257	1.00[CEU][hapmap]
rs17128169	1.00[CEU][hapmap]
rs17128172	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17128396	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17521316	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56770752	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56778408	1.00[EUR][1000 genomes]
rs57721717	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58104027	1.00[EUR][1000 genomes]
rs7134318	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7135212	1.00[EUR][1000 genomes]
rs73100424	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100433	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73106627	1.00[EUR][1000 genomes]
rs73106651	1.00[EUR][1000 genomes]
rs73110078	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73110086	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73110087	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73110089	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73112010	1.00[EUR][1000 genomes]
rs73112021	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73112024	1.00[EUR][1000 genomes]
rs73116213	1.00[EUR][1000 genomes]
rs73117999	1.00[EUR][1000 genomes]
rs73119906	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9668092	1.00[CEU][hapmap];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv899033	chr12:40758652-41122288	Bivalent/Poised TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	esv1848303	chr12:40867011-40887238	Enhancers Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	esv1850439	chr12:40867211-40887867	Enhancers ZNF genes & repeats Weak transcription Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	esv20428	chr12:40867874-40884927	Weak transcription Enhancers ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	esv3390786	chr12:40871685-40877783	ZNF genes & repeats Weak transcription Strong transcription	lncRNA	n/a	inside rSNPs	diseases
6	esv3500652	chr12:40872785-40877883	Weak transcription ZNF genes & repeats Strong transcription	lncRNA	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:40869600-40873000	Weak transcription	HMEC	breast
2	chr12:40872800-40873600	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
3	chr12:40872800-40873800	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
4	chr12:40872800-40873800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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