Variant report

Variant	rs11119397
Chromosome Location	chr1:210202851-210202852
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1002383	0.83[AMR][1000 genomes]
rs10127635	0.94[AMR][1000 genomes]
rs11119393	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11119395	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11119402	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs11119405	0.94[AMR][1000 genomes]
rs11119408	0.94[AMR][1000 genomes]
rs11119411	0.94[AMR][1000 genomes]
rs12059259	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12079711	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12082067	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12089636	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12093254	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12239153	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs1413698	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1591300	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17015561	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2130626	0.94[AMR][1000 genomes]
rs2130627	0.94[AMR][1000 genomes]
rs2130628	0.94[AMR][1000 genomes]
rs35046399	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56733441	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs58775140	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59254815	0.89[AMR][1000 genomes]
rs59904008	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs6540577	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6689269	0.83[AMR][1000 genomes]
rs7536495	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs978754	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999901	chr1:209600631-210205379	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv1014034	chr1:209759648-210501731	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv873140	chr1:210068117-210335644	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	esv1821002	chr1:210108473-210291476	ZNF genes & repeats Enhancers Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:210193400-210221000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr1:210194800-210212400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr1:210195000-210221200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr1:210196400-210208200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr1:210202800-210205200	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr1:210202800-210208800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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