Variant report

Variant	rs25742
Chromosome Location	chr5:97946158-97946159
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10038701	0.83[ASN][1000 genomes]
rs1345571	0.81[ASN][1000 genomes]
rs1363584	0.81[ASN][1000 genomes]
rs1421632	0.81[ASN][1000 genomes]
rs152954	0.85[ASN][1000 genomes]
rs152955	0.85[ASN][1000 genomes]
rs152956	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs152957	0.98[ASN][1000 genomes]
rs152963	0.84[ASN][1000 genomes]
rs152967	0.82[ASN][1000 genomes]
rs1559132	0.83[ASN][1000 genomes]
rs1592734	0.83[ASN][1000 genomes]
rs171528	0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs181854	0.85[ASN][1000 genomes]
rs1820766	0.83[ASN][1000 genomes]
rs193500	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2052447	0.81[ASN][1000 genomes]
rs2431067	0.85[ASN][1000 genomes]
rs251481	0.85[ASN][1000 genomes]
rs251482	0.85[ASN][1000 genomes]
rs251533	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs251535	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs25741	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs25743	0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs25744	0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs27029	0.97[ASN][1000 genomes]
rs27030	0.96[ASN][1000 genomes]
rs27738	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs27786	0.96[ASN][1000 genomes]
rs27870	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs27971	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs29661	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs29670	0.96[ASN][1000 genomes]
rs29733	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29734	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29735	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29736	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29770	0.85[ASN][1000 genomes]
rs29772	0.86[ASN][1000 genomes]
rs29773	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3099443	0.87[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs36759	0.96[ASN][1000 genomes]
rs36760	0.96[ASN][1000 genomes]
rs36761	0.96[ASN][1000 genomes]
rs36762	0.96[ASN][1000 genomes]
rs36763	0.91[ASN][1000 genomes]
rs36765	0.84[ASN][1000 genomes]
rs3860804	0.83[ASN][1000 genomes]
rs40263	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs457020	0.85[ASN][1000 genomes]
rs460723	0.85[ASN][1000 genomes]
rs463369	0.85[ASN][1000 genomes]
rs466058	0.85[ASN][1000 genomes]
rs466259	0.85[ASN][1000 genomes]
rs467763	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs467853	0.85[ASN][1000 genomes]
rs468674	0.96[ASN][1000 genomes]
rs469191	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs469328	0.85[ASN][1000 genomes]
rs4703113	0.83[ASN][1000 genomes]
rs4703114	0.83[ASN][1000 genomes]
rs4703120	0.83[ASN][1000 genomes]
rs622487	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs651434	0.85[ASN][1000 genomes]
rs6867574	0.81[ASN][1000 genomes]
rs6893541	0.83[ASN][1000 genomes]
rs765576	0.81[ASN][1000 genomes]
rs765577	0.81[ASN][1000 genomes]
rs7719420	0.81[ASN][1000 genomes]
rs7724726	0.81[ASN][1000 genomes]
rs929739	0.81[ASN][1000 genomes]
rs985151	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882412	chr5:97796120-97953719	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv1016611	chr5:97873846-98035559	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv537816	chr5:97873846-98035559	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv1029509	chr5:97888644-98040172	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv882413	chr5:97918829-98022320	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv508372	chr5:97931331-97948860	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
7	esv1832089	chr5:97934125-97976039	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:97940600-97949200	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr5:97941000-97949600	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr5:97941000-97949800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr5:97941200-97948200	Weak transcription	NHDF-Ad	bronchial
5	chr5:97944200-97946200	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr5:97945800-97946400	Enhancers	HSMMtube	muscle
7	chr5:97946000-97948400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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