Variant report

Variant	rs6562886
Chromosome Location	chr13:75952619-75952620
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1325466	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1408930	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1821127	0.92[ASN][1000 genomes]
rs2104418	0.84[EUR][1000 genomes]
rs2328940	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3825441	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4885286	0.87[EUR][1000 genomes]
rs6562887	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7330729	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7983831	0.87[EUR][1000 genomes]
rs7991823	0.97[ASN][1000 genomes]
rs7992747	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7998651	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9565154	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9565157	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9573529	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9573531	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9573532	0.94[ASN][1000 genomes]
rs9573533	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[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	nsv498067	chr13:75178898-76012362	Enhancers Active TSS Strong transcription Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	esv2761803	chr13:75943309-76161774	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 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	chr13:75945600-75955600	Weak transcription	Right Ventricle	heart
2	chr13:75948000-75953600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr13:75948000-75955800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr13:75948000-75958400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr13:75948400-75957400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr13:75949200-75958400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr13:75949200-75959200	Weak transcription	Left Ventricle	heart
8	chr13:75949400-75959200	Weak transcription	Psoas Muscle	Psoas
9	chr13:75950200-75959200	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr13:75951400-75953400	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr13:75951600-75954000	Enhancers	HepG2	liver
12	chr13:75951800-75959200	Weak transcription	Fetal Thymus	thymus
13	chr13:75952000-75953200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
14	chr13:75952000-75954000	Enhancers	Fetal Heart	heart
15	chr13:75952200-75953000	Enhancers	HUES64 Cell Line	embryonic stem cell
16	chr13:75952200-75953400	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr13:75952400-75952800	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
18	chr13:75952400-75953200	Weak transcription	Liver	Liver
19	chr13:75952400-75953400	Enhancers	Pancreatic Islets	Pancreatic Islet

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