Variant report

Variant	rs288233
Chromosome Location	chr5:107416580-107416581
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs149457	0.89[EUR][1000 genomes]
rs15158	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs158175	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs158186	0.91[EUR][1000 genomes]
rs158283	0.90[CEU][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs158285	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs185361	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs188274	0.88[EUR][1000 genomes]
rs286749	0.90[EUR][1000 genomes]
rs286750	0.89[EUR][1000 genomes]
rs286781	0.92[EUR][1000 genomes]
rs286802	0.86[CEU][hapmap];0.84[EUR][1000 genomes]
rs286809	0.83[CEU][hapmap];0.84[EUR][1000 genomes]
rs286818	0.90[EUR][1000 genomes]
rs288131	0.83[CEU][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs288143	0.83[CEU][hapmap];0.87[EUR][1000 genomes]
rs288144	0.83[CEU][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs288149	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs288151	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs288152	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs288154	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs288157	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs288161	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs288164	0.83[CEU][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs288168	0.93[CEU][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs288169	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs288170	0.82[EUR][1000 genomes]
rs288171	0.85[EUR][1000 genomes]
rs288172	0.83[CEU][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs288173	0.83[CEU][hapmap]
rs288180	0.83[CEU][hapmap]
rs288230	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs288232	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs288238	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs289227	0.83[CEU][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs289228	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs34383	0.82[EUR][1000 genomes]
rs34415	0.91[EUR][1000 genomes]
rs34424	0.80[CEU][hapmap]
rs34432	0.80[CEU][hapmap];0.80[EUR][1000 genomes]
rs365981	0.80[EUR][1000 genomes]
rs370216	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs372894	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs40067	0.91[EUR][1000 genomes]
rs406139	0.80[EUR][1000 genomes]
rs41129	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs41131	0.87[EUR][1000 genomes]
rs457378	0.80[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882682	chr5:107213361-107458336	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv534281	chr5:107357579-107674981	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv1029650	chr5:107370079-107435314	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107388400-107510800	Weak transcription	Primary B cells from cord blood	blood
2	chr5:107403800-107429800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr5:107412200-107418000	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr5:107412200-107420600	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr5:107413600-107418400	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr5:107414600-107419000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr5:107414800-107427800	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr5:107415000-107421000	Weak transcription	Pancreas	Pancrea
9	chr5:107415400-107418000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr5:107415600-107416800	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
11	chr5:107415600-107417000	Enhancers	H9 Cell Line	embryonic stem cell
12	chr5:107415800-107419600	Weak transcription	Fetal Lung	lung
13	chr5:107415800-107419800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr5:107416000-107417200	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
15	chr5:107416000-107418400	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr5:107416000-107418600	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr5:107416000-107419400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
18	chr5:107416000-107443600	Weak transcription	Primary T cells from cord blood	blood
19	chr5:107416200-107416800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr5:107416200-107424200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr5:107416400-107416600	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr5:107416400-107417000	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
23	chr5:107416400-107417000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
24	chr5:107416400-107417800	Weak transcription	Adipose Nuclei	Adipose
25	chr5:107416400-107419400	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr5:107416400-107419800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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