Variant report

Variant	rs798308
Chromosome Location	chr7:77957980-77957981
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs12154641	0.81[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs12705409	0.84[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1860538	1.00[CHB][hapmap];0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs1990370	0.90[CHB][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs2075013	0.95[CHB][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs2075014	0.84[CHB][hapmap];0.93[JPT][hapmap];0.80[ASN][1000 genomes]
rs2159511	0.87[YRI][hapmap];0.82[ASN][1000 genomes]
rs2534646	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2534647	0.81[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[YRI][hapmap];0.82[ASN][1000 genomes]
rs2534648	0.82[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.87[YRI][hapmap];0.83[ASN][1000 genomes]
rs2534649	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2691513	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2691530	0.90[CHB][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs2691531	0.81[ASN][1000 genomes]
rs2691532	0.83[ASN][1000 genomes]
rs2691533	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2691535	0.82[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.93[YRI][hapmap];0.84[ASN][1000 genomes]
rs2691538	0.85[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs2691539	0.83[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2691540	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2691544	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2691545	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2691546	0.90[CHB][hapmap];0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs4371942	0.89[CHB][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs4374924	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4556031	0.90[CHB][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs6976483	0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.96[ASN][1000 genomes]
rs798309	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs798310	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs798314	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs798317	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv607654	chr7:77537964-78014329	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1034622	chr7:77579053-77958967	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv538984	chr7:77579053-77958967	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv532146	chr7:77612319-77958966	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv1022764	chr7:77911072-78316607	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:77946200-77976000	Weak transcription	Aorta	Aorta
2	chr7:77953600-77986600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr7:77955200-77963000	Weak transcription	Esophagus	oesophagus
4	chr7:77955400-77958800	Enhancers	Fetal Heart	heart
5	chr7:77955600-77958600	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr7:77955800-77958800	Enhancers	Brain Germinal Matrix	brain
7	chr7:77956600-77958000	Enhancers	Fetal Brain Female	brain
8	chr7:77956600-77958200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr7:77956800-77964400	Weak transcription	Ovary	ovary
10	chr7:77957000-77958200	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr7:77957000-77975800	Weak transcription	Brain Angular Gyrus	brain
12	chr7:77957200-77973200	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr7:77957200-77975800	Weak transcription	Brain Substantia Nigra	brain
14	chr7:77957400-77959200	Enhancers	Pancreatic Islets	Pancreatic Islet
15	chr7:77957600-77959000	Weak transcription	Fetal Muscle Leg	muscle
16	chr7:77957600-77974800	Weak transcription	Brain Hippocampus Middle	brain
17	chr7:77957600-77976000	Weak transcription	Brain Cingulate Gyrus	brain
18	chr7:77957600-77978600	Weak transcription	Brain Anterior Caudate	brain
19	chr7:77957800-77958400	Enhancers	Fetal Brain Male	brain

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