Variant report

Variant	rs3851578
Chromosome Location	chr12:10989321-10989322
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:10969213..10971751-chr12:10989074..10992031,3	MCF-7	breast:

Extended variants
information (count: 44 )
Associated
traits (count: 10 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10743927	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10845220	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12371728	1.00[ASN][1000 genomes]
rs1548804	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs16925194	1.00[ASN][1000 genomes]
rs2110097	1.00[ASN][1000 genomes]
rs2159899	0.93[EUR][1000 genomes]
rs2215716	1.00[ASN][1000 genomes]
rs2232956	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2418105	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2418106	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2900550	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3906864	0.81[EUR][1000 genomes]
rs4288845	1.00[ASN][1000 genomes]
rs55748583	1.00[ASN][1000 genomes]
rs55834906	1.00[ASN][1000 genomes]
rs55862154	1.00[ASN][1000 genomes]
rs612808	0.90[EUR][1000 genomes]
rs619381	0.81[EUR][1000 genomes]
rs621112	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6488328	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66679979	1.00[ASN][1000 genomes]
rs666841	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs667128	0.81[EUR][1000 genomes]
rs669503	0.83[EUR][1000 genomes]
rs67458095	1.00[ASN][1000 genomes]
rs684208	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7299578	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73045955	1.00[ASN][1000 genomes]
rs73051630	1.00[ASN][1000 genomes]
rs73052447	1.00[ASN][1000 genomes]
rs73052449	1.00[ASN][1000 genomes]
rs73052454	1.00[ASN][1000 genomes]
rs73053785	1.00[ASN][1000 genomes]
rs73054354	1.00[ASN][1000 genomes]
rs73054361	1.00[ASN][1000 genomes]
rs73054364	1.00[ASN][1000 genomes]
rs741092	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs763839	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7957888	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][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	nsv1049362	chr12:10893573-11018850	Bivalent Enhancer Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv898776	chr12:10909412-11032045	Genic enhancers Strong transcription ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	esv2758294	chr12:10969620-11714921	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
4	esv2759879	chr12:10969620-11714921	Genic enhancers Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases

mRNA abundance (count:10)

SNP	Gene	Cis/trans	Tissue	Source
rs3851578	TAS2R13	cis	cerebellum	SCAN
rs3851578	PRR4	cis	parietal	SCAN
rs3851578	PRH1	cis	cerebellum	SCAN
rs3851578	TAS2R8	cis	parietal	SCAN
rs3851578	TAS2R10	cis	parietal	SCAN
rs3851578	TAS2R43	cis	parietal	SCAN
rs3851578	TAS2R45	N/A	lymphoblastoid	RTeQTL
rs3851578	PRR4	cis	multi-tissue	Pritchard
rs3851578	TAS2R43	cis	cerebellum	SCAN
rs3851578	TAS2R9	cis	parietal	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:10973600-11009600	Weak transcription	HSMM	muscle
2	chr12:10986800-10989400	Weak transcription	Primary T cells from cord blood	blood
3	chr12:10987400-10989600	Weak transcription	Aorta	Aorta
4	chr12:10988000-10995400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr12:10988400-11006000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr12:10988400-11008400	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr12:10988600-10995600	Weak transcription	Stomach Smooth Muscle	stomach
8	chr12:10988800-11001600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr12:10989200-10989600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr12:10989200-10990200	ZNF genes & repeats	Fetal Muscle Leg	muscle
11	chr12:10989200-10999200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr12:10989200-11008600	Weak transcription	Brain Cingulate Gyrus	brain

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