Variant report

Variant	rs13180599
Chromosome Location	chr5:58435276-58435277
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]
rs11955845	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13160617	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13164981	0.94[CEU][hapmap];0.85[JPT][hapmap];0.86[EUR][1000 genomes]
rs13178514	0.87[EUR][1000 genomes]
rs13185063	0.94[CEU][hapmap];0.88[JPT][hapmap];0.86[EUR][1000 genomes]
rs13185828	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13185996	0.86[EUR][1000 genomes]
rs13186000	0.86[EUR][1000 genomes]
rs13186012	0.94[CEU][hapmap];0.88[JPT][hapmap];0.87[EUR][1000 genomes]
rs13186015	0.87[EUR][1000 genomes]
rs16877155	0.94[CEU][hapmap];0.88[JPT][hapmap];0.87[EUR][1000 genomes]
rs2059191	0.94[CEU][hapmap];0.88[JPT][hapmap];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2409627	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs33950471	0.93[CEU][hapmap];0.86[EUR][1000 genomes]
rs34235034	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35406293	0.85[AMR][1000 genomes]
rs56273963	0.87[EUR][1000 genomes]
rs889229	0.87[CEU][hapmap]
rs9647533	0.85[AMR][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	esv2830363	chr5:57893949-58555491	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv881702	chr5:58432413-58474854	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58424000-58439800	Weak transcription	Small Intestine	intestine
2	chr5:58424000-58447000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr5:58424200-58446200	Weak transcription	Fetal Intestine Large	intestine
4	chr5:58424200-58446600	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr5:58427200-58454000	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr5:58428800-58435800	Weak transcription	Fetal Heart	heart
7	chr5:58429800-58447200	Weak transcription	Left Ventricle	heart
8	chr5:58430000-58437000	Weak transcription	Colon Smooth Muscle	Colon
9	chr5:58430000-58442600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr5:58431000-58440000	Weak transcription	Fetal Lung	lung
11	chr5:58431200-58437400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr5:58432200-58435400	Enhancers	Hela-S3	cervix
13	chr5:58432800-58436000	Enhancers	Skeletal Muscle Female	skeletal muscle
14	chr5:58433000-58451600	Weak transcription	Fetal Muscle Leg	muscle
15	chr5:58434400-58435400	Enhancers	Psoas Muscle	Psoas
16	chr5:58434800-58437800	Weak transcription	Stomach Smooth Muscle	stomach
17	chr5:58435000-58439600	Genic enhancers	A549	lung
18	chr5:58435200-58438000	Enhancers	Skeletal Muscle Male	skeletal muscle
19	chr5:58435200-58439000	Weak transcription	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