Variant report

Variant	rs57254982
Chromosome Location	chr6:49884175-49884176
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10948530	1.00[EUR][1000 genomes]
rs12111232	1.00[EUR][1000 genomes]
rs16879837	1.00[EUR][1000 genomes]
rs28553529	1.00[EUR][1000 genomes]
rs28738068	1.00[EUR][1000 genomes]
rs35289289	1.00[EUR][1000 genomes]
rs57160213	1.00[EUR][1000 genomes]
rs57245652	1.00[EUR][1000 genomes]
rs57341323	1.00[EUR][1000 genomes]
rs58055962	1.00[EUR][1000 genomes]
rs58116328	1.00[EUR][1000 genomes]
rs58662430	1.00[EUR][1000 genomes]
rs59244495	1.00[EUR][1000 genomes]
rs59713335	1.00[EUR][1000 genomes]
rs59784644	1.00[EUR][1000 genomes]
rs59924621	1.00[EUR][1000 genomes]
rs60504565	1.00[EUR][1000 genomes]
rs60925322	1.00[EUR][1000 genomes]
rs61041053	1.00[EUR][1000 genomes]
rs61041067	1.00[EUR][1000 genomes]
rs6919805	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73423739	1.00[EUR][1000 genomes]
rs73425837	1.00[EUR][1000 genomes]
rs73425844	1.00[EUR][1000 genomes]
rs73425861	1.00[EUR][1000 genomes]
rs73425868	1.00[EUR][1000 genomes]
rs73425873	1.00[EUR][1000 genomes]
rs73425895	1.00[EUR][1000 genomes]
rs73425899	1.00[EUR][1000 genomes]
rs73427869	1.00[EUR][1000 genomes]
rs73439877	1.00[EUR][1000 genomes]
rs73441811	1.00[EUR][1000 genomes]
rs73441829	1.00[EUR][1000 genomes]
rs73441834	1.00[EUR][1000 genomes]
rs73441836	1.00[EUR][1000 genomes]
rs73441840	1.00[EUR][1000 genomes]
rs73441857	1.00[EUR][1000 genomes]
rs9473702	1.00[EUR][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	nsv933942	chr6:49480550-50004231	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv933833	chr6:49515134-49961765	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv462944	chr6:49869448-49948059	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv603091	chr6:49869448-49948059	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:49879400-49886400	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr6:49881800-49886200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr6:49881800-49886400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr6:49881800-49886400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr6:49882600-49884600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr6:49882800-49886000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr6:49883000-49885200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:49883000-49886200	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr6:49883200-49886000	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr6:49883200-49886000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr6:49883200-49886000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr6:49883200-49886800	Weak transcription	Fetal Brain Female	brain
13	chr6:49883400-49886000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr6:49883400-49886200	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr6:49883600-49885600	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr6:49883800-49886200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr6:49884000-49886600	Weak transcription	Fetal Brain Male	brain

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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

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