Variant report

Variant	rs1899375
Chromosome Location	chr2:151183905-151183906
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10165225	0.83[EUR][1000 genomes]
rs10165666	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10173947	0.83[EUR][1000 genomes]
rs10209398	0.83[EUR][1000 genomes]
rs1036793	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11693655	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11888189	0.83[EUR][1000 genomes]
rs11895581	0.83[EUR][1000 genomes]
rs11899312	0.83[EUR][1000 genomes]
rs12623971	0.82[CEU][hapmap]
rs12692649	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13394286	0.83[EUR][1000 genomes]
rs1372431	1.00[EUR][1000 genomes]
rs1372432	1.00[EUR][1000 genomes]
rs1372433	1.00[EUR][1000 genomes]
rs1372435	1.00[EUR][1000 genomes]
rs1372436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1441969	1.00[EUR][1000 genomes]
rs16828061	1.00[EUR][1000 genomes]
rs16828069	1.00[EUR][1000 genomes]
rs2334315	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35956280	1.00[EUR][1000 genomes]
rs3924622	1.00[EUR][1000 genomes]
rs4233802	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4362583	0.83[EUR][1000 genomes]
rs4366927	0.80[EUR][1000 genomes]
rs4402789	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4404295	0.83[EUR][1000 genomes]
rs4414701	1.00[EUR][1000 genomes]
rs4425094	0.83[EUR][1000 genomes]
rs4425095	0.83[EUR][1000 genomes]
rs4508619	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4522630	1.00[EUR][1000 genomes]
rs4544461	1.00[EUR][1000 genomes]
rs4563247	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4566385	1.00[EUR][1000 genomes]
rs4577299	0.83[EUR][1000 genomes]
rs4585053	0.83[EUR][1000 genomes]
rs4589785	0.83[EUR][1000 genomes]
rs4600678	1.00[EUR][1000 genomes]
rs4603783	1.00[EUR][1000 genomes]
rs4606957	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4664428	1.00[EUR][1000 genomes]
rs62167367	0.83[EUR][1000 genomes]
rs62167369	0.83[EUR][1000 genomes]
rs6727491	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6731304	1.00[EUR][1000 genomes]
rs6740399	1.00[EUR][1000 genomes]
rs6748737	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6761282	1.00[EUR][1000 genomes]
rs6761697	0.83[EUR][1000 genomes]
rs734135	1.00[EUR][1000 genomes]
rs7560459	0.80[EUR][1000 genomes]
rs7563730	0.83[EUR][1000 genomes]
rs7564257	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7564743	0.83[EUR][1000 genomes]
rs7608140	0.89[AMR][1000 genomes]
rs7608904	1.00[EUR][1000 genomes]
rs9287819	0.83[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	nsv995119	chr2:150556150-151294696	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1001838	chr2:150819672-151745876	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv535980	chr2:150819672-151745876	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
4	nsv532473	chr2:151164210-151701860	Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:151177600-151184200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr2:151178600-151184000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr2:151181400-151185200	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr2:151181600-151184000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr2:151182000-151185600	Enhancers	Fetal Brain Male	brain
6	chr2:151182200-151184200	Enhancers	Fetal Brain Female	brain
7	chr2:151182600-151184200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr2:151182800-151184000	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr2:151183000-151184000	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr2:151183400-151184000	Weak transcription	Brain Germinal Matrix	brain
11	chr2:151183400-151184200	Weak transcription	Rectal Smooth Muscle	rectum
12	chr2:151183600-151184000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr2:151183600-151192200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr2:151183800-151184600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr2:151183800-151184800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr2:151183800-151185000	Enhancers	iPS-18 Cell Line	embryonic stem cell

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