Variant report

Variant	rs13085715
Chromosome Location	chr3:179601072-179601073
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs12171276	0.99[EUR][1000 genomes]
rs12487519	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12488582	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13071231	0.84[AMR][1000 genomes]
rs13083814	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13091962	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13097749	0.90[EUR][1000 genomes]
rs1404272	0.84[AMR][1000 genomes]
rs17691629	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17691869	0.94[EUR][1000 genomes]
rs17692126	0.84[AMR][1000 genomes]
rs28651290	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34446871	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34849178	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62291649	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs67980618	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9822592	0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829807	chr3:179527567-179745153	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv829808	chr3:179574614-179754321	Strong transcription Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179533800-179605000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr3:179564200-179606000	Strong transcription	Dnd41	blood
3	chr3:179595800-179605800	Weak transcription	Pancreas	Pancrea
4	chr3:179598400-179601200	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr3:179598600-179601200	Enhancers	HUES6 Cell Line	embryonic stem cell
6	chr3:179598800-179601200	Enhancers	H1 Cell Line	embryonic stem cell
7	chr3:179598800-179601200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr3:179598800-179601200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr3:179598800-179603600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr3:179599200-179601200	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr3:179599400-179601200	Enhancers	Brain Inferior Temporal Lobe	brain
12	chr3:179600200-179601200	Enhancers	iPS-20b Cell Line	embryonic stem cell
13	chr3:179600400-179601200	Enhancers	Brain Hippocampus Middle	brain
14	chr3:179600400-179601400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr3:179600400-179603400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr3:179600400-179610600	Weak transcription	Brain Angular Gyrus	brain
17	chr3:179600600-179602400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr3:179600600-179603400	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr3:179601000-179601400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
20	chr3:179601000-179602200	Enhancers	GM12878-XiMat	blood
21	chr3:179601000-179603400	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr3:179601000-179604400	Weak transcription	Brain Substantia Nigra	brain
23	chr3:179601000-179605800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr3:179601000-179609000	Weak transcription	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links