Variant report

Variant	rs807545
Chromosome Location	chr6:24564129-24564130
allele	A/C
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:12)

rs_ID	r²[population]
rs16889660	1.00[JPT][hapmap]
rs2744601	0.84[MEX][hapmap]
rs7755514	1.00[JPT][hapmap]
rs7766456	1.00[JPT][hapmap]
rs807508	1.00[ASW][hapmap];0.85[CEU][hapmap];0.85[CHB][hapmap];0.94[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs807521	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs807522	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs807523	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs807525	1.00[ASW][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs807534	1.00[JPT][hapmap];0.84[MEX][hapmap]
rs807535	1.00[JPT][hapmap];0.84[MEX][hapmap]
rs807544	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][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	esv34020	chr6:24481299-24606036	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1020653	chr6:24557870-24638244	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24496200-24583000	Weak transcription	Hela-S3	cervix
2	chr6:24535200-24566600	Weak transcription	Brain Germinal Matrix	brain
3	chr6:24535200-24591200	Weak transcription	Fetal Brain Male	brain
4	chr6:24535600-24583400	Weak transcription	Brain Cingulate Gyrus	brain
5	chr6:24539200-24583200	Weak transcription	Fetal Intestine Small	intestine
6	chr6:24548400-24583400	Weak transcription	A549	lung
7	chr6:24550200-24566400	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr6:24552600-24568800	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr6:24559600-24577600	Weak transcription	Pancreas	Pancrea
10	chr6:24562400-24583400	Weak transcription	Right Atrium	heart
11	chr6:24563200-24564400	Strong transcription	Brain Angular Gyrus	brain
12	chr6:24563200-24564400	Strong transcription	Brain Anterior Caudate	brain
13	chr6:24563200-24564400	Bivalent Enhancer	HepG2	liver
14	chr6:24563200-24565200	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr6:24563200-24565200	Strong transcription	Fetal Brain Female	brain
16	chr6:24563400-24565000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr6:24563600-24564800	Strong transcription	Brain Inferior Temporal Lobe	brain
18	chr6:24564000-24564800	Enhancers	hESC Derived CD56+ Ectoderm 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