Variant report

Variant	rs1403894
Chromosome Location	chr2:168161260-168161261
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 105 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs10186558	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10189334	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10192896	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1048981	0.84[CEU][hapmap];0.81[GIH][hapmap];0.94[JPT][hapmap]
rs1048982	0.82[EUR][1000 genomes]
rs10497321	0.82[CEU][hapmap]
rs10803821	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10803822	0.92[EUR][1000 genomes]
rs10930264	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10930265	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12105767	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1357598	0.81[AFR][1000 genomes]
rs1357599	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1357602	0.83[ASN][1000 genomes]
rs1403900	0.87[EUR][1000 genomes]
rs1403901	0.87[EUR][1000 genomes]
rs1479587	0.83[EUR][1000 genomes]
rs1479591	0.84[EUR][1000 genomes]
rs1523878	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1540820	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1540821	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1540822	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1581484	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1581485	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1589728	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16853227	0.82[CEU][hapmap]
rs16853282	0.82[CEU][hapmap];0.81[GIH][hapmap];0.83[TSI][hapmap]
rs16853285	0.82[CEU][hapmap];0.82[TSI][hapmap]
rs16853291	0.82[CEU][hapmap]
rs16853296	0.82[CEU][hapmap]
rs16853305	0.82[CEU][hapmap]
rs16853306	0.91[CEU][hapmap];0.84[MEX][hapmap]
rs16853309	0.82[CEU][hapmap];0.91[MEX][hapmap];0.81[TSI][hapmap];0.82[AMR][1000 genomes]
rs16853328	0.81[GIH][hapmap];0.83[TSI][hapmap]
rs16853330	0.91[CEU][hapmap];0.84[MEX][hapmap]
rs16853331	0.82[CEU][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap];0.82[AMR][1000 genomes]
rs16853337	0.82[CEU][hapmap];0.80[EUR][1000 genomes]
rs16853344	0.82[CEU][hapmap];0.83[EUR][1000 genomes]
rs16853346	0.85[EUR][1000 genomes]
rs16853348	0.83[EUR][1000 genomes]
rs16853353	0.83[EUR][1000 genomes]
rs16853360	0.83[EUR][1000 genomes]
rs16853370	0.83[EUR][1000 genomes]
rs1851758	0.90[EUR][1000 genomes]
rs1851759	0.87[EUR][1000 genomes]
rs1851760	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1916742	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1916746	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1916747	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2103098	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2140501	0.82[EUR][1000 genomes]
rs2177441	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2177442	0.81[EUR][1000 genomes]
rs2617368	0.87[EUR][1000 genomes]
rs2689823	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2689842	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2927600	0.90[EUR][1000 genomes]
rs3749004	0.82[CEU][hapmap];0.91[MEX][hapmap];0.81[TSI][hapmap];0.82[AMR][1000 genomes]
rs3749006	0.91[CEU][hapmap];0.94[JPT][hapmap];0.83[TSI][hapmap];0.85[EUR][1000 genomes]
rs4538166	0.93[EUR][1000 genomes]
rs57797869	0.93[EUR][1000 genomes]
rs58013803	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60102532	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60214239	0.81[EUR][1000 genomes]
rs61529696	0.93[EUR][1000 genomes]
rs61750760	0.82[AMR][1000 genomes]
rs6432987	0.82[CEU][hapmap]
rs6715974	0.84[EUR][1000 genomes]
rs6716354	0.84[EUR][1000 genomes]
rs6726067	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6731860	0.82[EUR][1000 genomes]
rs6735992	0.82[EUR][1000 genomes]
rs6743941	0.83[AFR][1000 genomes]
rs6744215	0.84[EUR][1000 genomes]
rs6746887	0.85[EUR][1000 genomes]
rs6747157	0.84[EUR][1000 genomes]
rs6747227	0.91[CEU][hapmap]
rs6749022	0.84[EUR][1000 genomes]
rs6749144	0.84[EUR][1000 genomes]
rs6759681	0.81[CEU][hapmap]
rs73012072	0.84[EUR][1000 genomes]
rs73972224	0.82[AMR][1000 genomes]
rs73972228	0.93[EUR][1000 genomes]
rs73972230	0.93[EUR][1000 genomes]
rs7573953	0.91[CEU][hapmap];0.84[GIH][hapmap];0.94[JPT][hapmap];0.83[TSI][hapmap];0.81[EUR][1000 genomes]
rs7576938	0.82[CEU][hapmap]
rs7578175	0.84[EUR][1000 genomes]
rs7580183	0.82[CEU][hapmap]
rs7581012	0.82[CEU][hapmap];0.82[AMR][1000 genomes]
rs7581190	0.91[CEU][hapmap];0.81[GIH][hapmap];0.83[TSI][hapmap]
rs7593641	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7594496	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7600424	0.82[CEU][hapmap]
rs7602109	0.91[CEU][hapmap]
rs7604377	0.84[EUR][1000 genomes]
rs7607246	0.82[CEU][hapmap];0.81[GIH][hapmap];0.83[TSI][hapmap]
rs922536	0.82[CEU][hapmap]
rs922537	0.82[CEU][hapmap];0.81[GIH][hapmap];0.83[TSI][hapmap]
rs9287881	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9751663	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9751666	0.87[AMR][1000 genomes];0.92[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	nsv875377	chr2:168084857-168203116	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
2	nsv875378	chr2:168107491-168297961	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	esv3364733	chr2:168109919-168302141	Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv1008704	chr2:168153525-168196371	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:168151400-168163600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr2:168152000-168174400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr2:168152600-168167000	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr2:168154400-168173600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr2:168154800-168165800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr2:168157200-168163000	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr2:168160200-168164800	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr2:168160400-168165000	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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