Variant report

Variant	rs16849285
Chromosome Location	chr1:175846158-175846159
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10913091	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12117735	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12118970	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1361521	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16849286	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs478276	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs500894	0.90[EUR][1000 genomes]
rs524684	0.83[EUR][1000 genomes]
rs72711130	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72711137	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7517760	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv33328	chr1:175446583-175910001	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv872560	chr1:175648631-175869554	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv522255	chr1:175827683-175849898	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:175835600-175848200	Weak transcription	Aorta	Aorta
2	chr1:175838800-175847400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr1:175841600-175846200	Weak transcription	Brain Cingulate Gyrus	brain
4	chr1:175841600-175846800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr1:175842000-175846400	Weak transcription	Brain Angular Gyrus	brain
6	chr1:175842000-175846800	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr1:175842400-175848600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr1:175843000-175846400	Weak transcription	Brain Hippocampus Middle	brain
9	chr1:175843000-175855000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr1:175843200-175846800	Weak transcription	Brain Substantia Nigra	brain
11	chr1:175843400-175846200	Weak transcription	Brain Germinal Matrix	brain
12	chr1:175843400-175846800	Weak transcription	Brain Anterior Caudate	brain
13	chr1:175844800-175847600	Enhancers	Fetal Lung	lung
14	chr1:175845200-175846400	Enhancers	Fetal Muscle Trunk	muscle
15	chr1:175845400-175846600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr1:175845600-175848200	Enhancers	Adipose Nuclei	Adipose
17	chr1:175845800-175850400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr1:175846000-175847600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links