Variant report

Variant	rs10279939
Chromosome Location	chr7:52707122-52707123
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10224969	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10228124	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10234654	0.86[ASN][1000 genomes]
rs10234786	0.86[ASN][1000 genomes]
rs10240079	0.86[ASN][1000 genomes]
rs10242188	0.89[ASN][1000 genomes]
rs10244173	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10244941	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10259491	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10269408	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10275733	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1729823	0.95[EUR][1000 genomes]
rs2463889	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7777683	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7800854	1.00[EUR][1000 genomes];0.82[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	nsv888026	chr7:52588348-53013671	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv888027	chr7:52588348-53190508	Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1019211	chr7:52706930-52785302	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:52703400-52707800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr7:52706200-52707600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr7:52706400-52708400	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr7:52706600-52708000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr7:52706600-52708200	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr7:52706600-52708200	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr7:52706600-52708200	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr7:52706600-52708400	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr7:52706600-52708400	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr7:52706800-52707200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr7:52706800-52708200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr7:52706800-52708400	Enhancers	H1 Cell Line	embryonic stem cell
13	chr7:52706800-52708400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr7:52706800-52708400	Enhancers	Muscle Satellite Cultured Cells	--
15	chr7:52706800-52708600	Enhancers	NH-A	brain
16	chr7:52707000-52707400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr7:52707000-52707800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr7:52707000-52707800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr7:52707000-52707800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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

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