Variant report

Variant	rs9890079
Chromosome Location	chr17:59779583-59779584
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs16945503	1.00[AMR][1000 genomes]
rs16945506	1.00[AMR][1000 genomes]
rs59115933	1.00[AMR][1000 genomes]
rs7209316	0.90[AFR][1000 genomes]
rs7222218	0.94[AFR][1000 genomes]
rs8066209	0.83[AFR][1000 genomes]
rs8077553	1.00[AMR][1000 genomes]
rs9891463	0.94[AFR][1000 genomes]
rs9894788	1.00[AMR][1000 genomes]
rs9901708	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9901948	0.97[AFR][1000 genomes]
rs9904939	1.00[AMR][1000 genomes]
rs9908837	0.89[AFR][1000 genomes]
rs9910911	0.97[AFR][1000 genomes]
rs9911108	1.00[AMR][1000 genomes]
rs9913108	0.86[AFR][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	esv3378293	chr17:59744117-60124899	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	175 gene(s)	inside rSNPs	diseases
2	nsv908673	chr17:59767501-59926645	Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	94 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:59763400-59792800	Weak transcription	NH-A	brain
2	chr17:59766000-59819000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr17:59767600-59792800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr17:59767600-59793200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr17:59771800-59794600	Weak transcription	HSMM	muscle
6	chr17:59775600-59780200	ZNF genes & repeats	Dnd41	blood
7	chr17:59777000-59780000	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
8	chr17:59777200-59780000	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
9	chr17:59777400-59785600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr17:59777800-59779800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr17:59778200-59780600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
12	chr17:59778200-59805800	Weak transcription	Thymus	Thymus
13	chr17:59779000-59785000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr17:59779200-59785600	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr17:59779400-59780000	Weak transcription	Fetal Brain Male	brain
16	chr17:59779400-59790000	Weak transcription	HepG2	liver

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