Variant report

Variant	rs57854733
Chromosome Location	chr3:140241036-140241037
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1593803	1.00[AMR][1000 genomes]
rs56684347	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59323628	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60162619	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72976030	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72976052	1.00[AMR][1000 genomes]
rs72976061	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72976065	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72992708	1.00[AMR][1000 genomes]
rs73867198	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757891	chr3:139925764-140524730	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	esv2759181	chr3:139925764-140524730	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv527831	chr3:139932966-140533823	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	esv34489	chr3:140009020-140469302	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	esv2757012	chr3:140009220-140460228	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv591863	chr3:140126067-140274442	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:140224400-140247200	Weak transcription	Ovary	ovary
2	chr3:140237400-140249400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr3:140240000-140241600	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr3:140240200-140241200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr3:140240200-140241400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr3:140240200-140241600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr3:140240200-140242200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr3:140240200-140242200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr3:140240400-140241200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr3:140240400-140241400	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr3:140240400-140241400	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr3:140240400-140241600	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr3:140240400-140241600	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr3:140240600-140241200	Enhancers	Placenta Amnion	Placenta Amnion
15	chr3:140240600-140241400	Enhancers	H1 Cell Line	embryonic stem cell
16	chr3:140240800-140241400	Enhancers	iPS-18 Cell Line	embryonic stem cell
17	chr3:140241000-140241400	Weak transcription	HSMMtube	muscle
18	chr3:140241000-140242000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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