Variant report

Variant	rs2798559
Chromosome Location	chr1:211575092-211575093
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10449313	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1055565	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1084981	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10863888	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10863895	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12116749	0.88[EUR][1000 genomes]
rs1533217	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1663522	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1777827	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2063569	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2920908	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2920911	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3002258	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3738199	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4951520	0.81[EUR][1000 genomes]
rs4951523	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4951741	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4951742	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6667740	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6696938	0.80[EUR][1000 genomes]
rs6703361	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7520989	0.83[EUR][1000 genomes]
rs7538692	0.81[EUR][1000 genomes]
rs7550702	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs784369	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs784379	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs784382	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs784383	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs784385	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs784389	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2762141	chr1:211538685-211603843	Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	n/a
2	esv1824154	chr1:211565640-211614280	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:211556800-211585800	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr1:211556800-211589800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr1:211557000-211576600	Weak transcription	Left Ventricle	heart
4	chr1:211557000-211580600	Weak transcription	Primary T helper cells fromperipheralblood	blood
5	chr1:211557000-211581000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr1:211557000-211581800	Weak transcription	Fetal Kidney	kidney
7	chr1:211557400-211575600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr1:211557400-211576000	Weak transcription	Fetal Intestine Small	intestine
9	chr1:211557600-211576200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr1:211566800-211576800	Weak transcription	Duodenum Mucosa	Duodenum
11	chr1:211567000-211581600	Weak transcription	Gastric	stomach
12	chr1:211569000-211576600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr1:211570800-211581000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr1:211572600-211575400	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr1:211573800-211589600	Weak transcription	Ovary	ovary
16	chr1:211574000-211585000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr1:211574000-211589600	Weak transcription	Liver	Liver
18	chr1:211574400-211576000	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr1:211574800-211575400	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr1:211574800-211575400	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr1:211574800-211576200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr1:211575000-211575200	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
23	chr1:211575000-211578000	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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