Variant report

Variant	rs6034361
Chromosome Location	chr20:16029726-16029727
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs1225890	0.89[CEU][hapmap]
rs1225891	0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1238278	0.89[CEU][hapmap];0.83[TSI][hapmap]
rs16997014	1.00[CHB][hapmap];0.90[JPT][hapmap];0.94[ASN][1000 genomes]
rs6034360	0.89[CEU][hapmap];0.86[TSI][hapmap];0.80[EUR][1000 genomes]
rs6080106	1.00[CHB][hapmap];0.86[GIH][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs775126	1.00[CEU][hapmap];0.95[CHB][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.86[MKK][hapmap];0.95[TSI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869328	chr20:15325423-16213898	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	esv3447866	chr20:15799286-16115291	Enhancers Genic enhancers Bivalent Enhancer Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1059778	chr20:15999519-16165895	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv544207	chr20:15999519-16165895	Weak transcription Bivalent Enhancer Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv585649	chr20:16004320-16066764	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv1061301	chr20:16007489-16097070	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:16016800-16030000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr20:16023800-16030200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr20:16024000-16030000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr20:16024600-16030200	Weak transcription	Primary hematopoietic stem cells	blood
5	chr20:16024600-16031400	Weak transcription	Fetal Brain Female	brain
6	chr20:16028000-16030000	Strong transcription	Primary B cells from cord blood	blood
7	chr20:16028800-16030800	Weak transcription	Primary B cells from peripheral blood	blood
8	chr20:16029200-16031000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr20:16029400-16030000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr20:16029400-16033800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr20:16029600-16030000	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr20:16029600-16031200	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr20:16029600-16031400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr20:16029600-16034200	Enhancers	Brain Germinal Matrix	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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