Variant report

Variant	rs16889615
Chromosome Location	chr5:58629497-58629498
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]
rs10471469	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10472105	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10472106	1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12055306	0.85[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12697177	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs13153653	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs1823068	0.90[GIH][hapmap]
rs2702365	0.90[GIH][hapmap]
rs35289	1.00[GIH][hapmap]
rs6877927	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs7723695	0.83[EUR][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	nsv1023628	chr5:58557950-58757438	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv917274	chr5:58565291-58814374	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv1030117	chr5:58587672-58637179	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58624600-58630000	Weak transcription	Fetal Intestine Small	intestine
2	chr5:58625000-58632000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr5:58625000-58632400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr5:58625000-58632400	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr5:58625000-58644600	Weak transcription	Left Ventricle	heart
6	chr5:58625400-58630800	Weak transcription	Colon Smooth Muscle	Colon
7	chr5:58626800-58631000	Weak transcription	Psoas Muscle	Psoas
8	chr5:58627200-58630000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr5:58627200-58634400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr5:58627400-58641600	Weak transcription	Skeletal Muscle Male	skeletal muscle
11	chr5:58628400-58629600	Enhancers	Fetal Lung	lung
12	chr5:58629400-58629600	Enhancers	A549	lung
13	chr5:58629400-58629600	Enhancers	Hela-S3	cervix
14	chr5:58629400-58631000	Weak transcription	Fetal Heart	heart

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