Variant report

Variant	rs12968314
Chromosome Location	chr18:24541402-24541403
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs12326470	0.99[ASN][1000 genomes]
rs12326646	0.99[ASN][1000 genomes]
rs12455253	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12458362	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12953982	0.90[AFR][1000 genomes]
rs12956514	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12962943	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12965711	0.87[ASN][1000 genomes]
rs12966203	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12970341	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs16943002	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16943003	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16943019	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16943023	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16943028	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16943030	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16943033	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16943045	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16943049	0.88[ASN][1000 genomes]
rs16943089	0.81[ASN][1000 genomes]
rs16943144	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16943156	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16943160	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16943161	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16943164	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16943178	0.92[AFR][1000 genomes]
rs16943184	0.92[AFR][1000 genomes]
rs16960687	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1821789	0.81[ASN][1000 genomes]
rs28564652	0.81[ASN][1000 genomes]
rs28647464	0.87[ASN][1000 genomes]
rs34738073	0.82[AFR][1000 genomes]
rs35269358	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35443853	0.90[AFR][1000 genomes]
rs35871650	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3865412	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3893013	0.81[ASN][1000 genomes]
rs3916234	0.99[ASN][1000 genomes]
rs4800273	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4800274	0.84[ASN][1000 genomes]
rs4800775	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4800776	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4800777	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4800782	0.90[AFR][1000 genomes]
rs56218423	0.81[ASN][1000 genomes]
rs60742277	0.81[ASN][1000 genomes]
rs60856601	0.81[ASN][1000 genomes]
rs6508462	0.81[ASN][1000 genomes]
rs71353414	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs71353415	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs71353416	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs71353417	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs71353424	0.90[AFR][1000 genomes]
rs71370779	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs717284	0.92[AFR][1000 genomes]
rs7229046	0.81[ASN][1000 genomes]
rs7236637	0.81[ASN][1000 genomes]
rs8087494	0.81[ASN][1000 genomes]
rs9946779	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9948561	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9950196	1.00[ASN][1000 genomes]
rs9950360	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9957444	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[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	nsv833600	chr18:24473894-24681019	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv909472	chr18:24479960-24614192	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1067103	chr18:24524011-24760469	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv543668	chr18:24524011-24760469	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	esv1816690	chr18:24539782-24572241	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:24537400-24545000	Weak transcription	Brain Anterior Caudate	brain
2	chr18:24537600-24543600	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr18:24538600-24543000	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr18:24540600-24542000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr18:24540800-24542400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr18:24540800-24545200	Weak transcription	Colon Smooth Muscle	Colon
7	chr18:24541000-24542400	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr18:24541200-24543200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr18:24541200-24544600	Weak transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links