Variant report

Variant	rs663273
Chromosome Location	chr15:34260782-34260783
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	REST	chr15:34260449-34260815	PFSK-1	brain:	n/a	n/a
2	CTCF	chr15:34260760-34260910	HEEpiC	esophagus:	n/a	n/a
3	REST	chr15:34260445-34260863	PFSK-1	brain:	n/a	n/a

Variant related genes	Relation type
CHRM5	TF binding region

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs12902206	0.80[AMR][1000 genomes]
rs2632086	0.86[CHB][hapmap]
rs2632095	0.86[CHB][hapmap]
rs2702310	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs476121	0.86[CHB][hapmap]
rs480616	0.86[CHB][hapmap]
rs493857	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs494935	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs501012	0.86[CHB][hapmap]
rs501432	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs504714	0.86[CHB][hapmap]
rs505720	0.86[CHB][hapmap]
rs516625	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs529672	0.86[CHB][hapmap]
rs530700	0.86[CHB][hapmap]
rs535732	0.86[CHB][hapmap]
rs553655	0.86[CHB][hapmap]
rs554293	0.86[CHB][hapmap]
rs554417	0.86[CHB][hapmap]
rs557225	0.86[CHB][hapmap]
rs558160	0.86[CHB][hapmap]
rs558923	0.86[CHB][hapmap]
rs571458	0.81[ASN][1000 genomes]
rs603479	0.86[CHB][hapmap]
rs606126	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs609097	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs636165	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs637055	0.85[CHB][hapmap]
rs638021	0.86[CHB][hapmap]
rs638169	0.85[CHB][hapmap];0.81[ASN][1000 genomes]
rs652699	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs661968	0.86[CHB][hapmap];0.81[ASN][1000 genomes]
rs676281	0.86[CHB][hapmap];0.81[ASN][1000 genomes]
rs676316	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap]
rs683470	0.86[CHB][hapmap]
rs683915	0.86[CHB][hapmap]
rs684819	0.83[AMR][1000 genomes]
rs685846	0.80[AMR][1000 genomes]
rs686966	0.86[CHB][hapmap]

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	nsv456789	chr15:34034421-34426618	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv568920	chr15:34034421-34426618	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv471235	chr15:34035529-34421951	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv1044844	chr15:34065524-34296829	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34236800-34277200	Weak transcription	Left Ventricle	heart
2	chr15:34238000-34282400	Weak transcription	Ovary	ovary
3	chr15:34257400-34263000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr15:34257600-34267200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr15:34260400-34260800	Active TSS	Fetal Kidney	kidney
6	chr15:34260400-34260800	Enhancers	Psoas Muscle	Psoas
7	chr15:34260400-34260800	Enhancers	Skeletal Muscle Female	skeletal muscle
8	chr15:34260400-34260800	Enhancers	HUVEC	blood vessel
9	chr15:34260400-34261000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr15:34260400-34261000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
11	chr15:34260400-34261000	Active TSS	Fetal Brain Male	brain
12	chr15:34260400-34261200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr15:34260400-34261200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr15:34260400-34261200	Active TSS	Brain Anterior Caudate	brain
15	chr15:34260400-34261200	Active TSS	Pancreatic Islets	Pancreatic Islet
16	chr15:34260400-34263200	Active TSS	Brain Angular Gyrus	brain
17	chr15:34260400-34264400	Active TSS	Brain Inferior Temporal Lobe	brain
18	chr15:34260400-34265000	Active TSS	Brain Cingulate Gyrus	brain
19	chr15:34260400-34265000	Active TSS	Brain Hippocampus Middle	brain
20	chr15:34260400-34265200	Active TSS	Brain Substantia Nigra	brain
21	chr15:34260600-34261000	Enhancers	Cortex derived primary cultured neurospheres	brain

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