Variant report

Variant	rs2052019
Chromosome Location	chr7:39505541-39505542
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10233706	0.88[CEU][hapmap];0.94[EUR][1000 genomes]
rs10261375	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12111665	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs12112344	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs12533673	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17171576	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs17171578	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs17713095	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs17713107	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs17713143	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs17769981	0.98[ASN][1000 genomes]
rs17769987	0.98[ASN][1000 genomes]
rs2024104	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2052017	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2052018	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2073539	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2073545	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs2108717	0.88[CEU][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2237384	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2237386	0.87[ASN][1000 genomes]
rs2237387	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2237388	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2237392	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs2237397	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs2237398	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs2282915	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2299134	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs3800850	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs3819416	0.84[ASN][1000 genomes]
rs4720324	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4723864	0.88[CEU][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4723865	0.88[CEU][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6960142	0.88[CEU][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73388309	0.87[ASN][1000 genomes]
rs73388311	0.87[ASN][1000 genomes]
rs763894	0.88[CEU][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs885689	0.88[CEU][hapmap];0.86[AMR][1000 genomes];0.94[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	nsv1021180	chr7:39424988-39642261	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1026951	chr7:39429036-39642261	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv966782	chr7:39454992-39581886	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1018430	chr7:39455497-39643569	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:39502600-39508000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr7:39504000-39505800	Enhancers	Fetal Thymus	thymus
3	chr7:39504200-39508400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr7:39504600-39507800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr7:39504800-39506000	Enhancers	Dnd41	blood
6	chr7:39505000-39507800	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr7:39505000-39508400	Weak transcription	Fetal Muscle Leg	muscle
8	chr7:39505000-39512800	Weak transcription	Fetal Kidney	kidney
9	chr7:39505200-39505600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr7:39505200-39505600	Enhancers	A549	lung
11	chr7:39505200-39506000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr7:39505200-39508400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr7:39505400-39507800	Weak transcription	Primary hematopoietic stem cells	blood

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