Variant report

Variant	rs2500085
Chromosome Location	chr6:14777315-14777316
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs2472806	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2472808	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2472809	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2472811	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2500081	0.83[AMR][1000 genomes]
rs2500087	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023685	chr6:14514647-14838390	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1031668	chr6:14774036-15044308	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv538138	chr6:14774036-15044308	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	10 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	chr6:14768000-14785200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:14772000-14777800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr6:14772800-14777400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:14772800-14777600	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr6:14772800-14777600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr6:14772800-14777600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:14772800-14777800	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr6:14772800-14783800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr6:14773400-14777800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr6:14775600-14790000	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr6:14777000-14777400	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr6:14777000-14777400	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr6:14777000-14777800	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr6:14777000-14777800	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr6:14777200-14777600	Enhancers	K562	blood
16	chr6:14777200-14778000	Active TSS	A549	lung

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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