Variant report

Variant	rs11242662
Chromosome Location	chr5:107417744-107417745
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10035292	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10058029	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10060325	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10067069	0.97[LWK][hapmap];0.86[MKK][hapmap];0.95[YRI][hapmap];0.89[AFR][1000 genomes]
rs10070525	0.81[JPT][hapmap]
rs10071475	0.82[AFR][1000 genomes]
rs10479422	0.86[YRI][hapmap]
rs1108067	0.95[YRI][hapmap];0.89[AFR][1000 genomes]
rs11242661	0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs12515105	0.81[CHB][hapmap];0.90[CHD][hapmap];0.91[MEX][hapmap]
rs12523367	0.81[CHB][hapmap]
rs15158	0.84[CHB][hapmap]
rs158415	0.81[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17161080	0.81[CHB][hapmap]
rs2416522	0.81[JPT][hapmap]
rs286749	0.90[CHB][hapmap]
rs286750	0.89[CHB][hapmap]
rs286753	0.90[CHB][hapmap]
rs286794	1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[JPT][hapmap];0.87[TSI][hapmap];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs288131	0.90[CHB][hapmap]
rs288139	0.90[CHB][hapmap]
rs288143	0.90[CHB][hapmap]
rs288144	0.90[CHB][hapmap]
rs288145	0.90[CHB][hapmap]
rs288146	0.90[CHB][hapmap]
rs288147	0.90[CHB][hapmap]
rs288154	0.85[CHB][hapmap]
rs288157	0.90[CHB][hapmap]
rs288161	0.90[CHB][hapmap]
rs288164	0.89[CHB][hapmap]
rs288169	0.89[CHB][hapmap]
rs288171	0.90[CHB][hapmap]
rs288172	0.84[CHB][hapmap]
rs288228	0.90[CHB][hapmap]
rs288237	0.90[CHB][hapmap]
rs289227	0.90[CHB][hapmap]
rs289228	0.90[CHB][hapmap]
rs289230	0.89[CHB][hapmap]
rs4957550	0.80[CEU][hapmap]
rs4957738	0.91[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6865439	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6867631	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6870573	0.80[CEU][hapmap]
rs6871109	0.91[YRI][hapmap];0.84[AFR][1000 genomes]
rs723396	0.81[JPT][hapmap];0.82[MEX][hapmap]
rs7728371	1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]

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	chr5:107415800-107419600	Weak transcription	Fetal Lung	lung
11	chr5:107415800-107419800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr5:107416000-107418400	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr5:107416000-107418600	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr5:107416000-107419400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr5:107416000-107443600	Weak transcription	Primary T cells from cord blood	blood
16	chr5:107416200-107424200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr5:107416400-107417800	Weak transcription	Adipose Nuclei	Adipose
18	chr5:107416400-107419400	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr5:107416400-107419800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr5:107416800-107418200	Enhancers	HUES48 Cell Line	embryonic stem cell
21	chr5:107416800-107427400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr5:107417000-107419400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr5:107417200-107417800	Enhancers	iPS-20b Cell Line	embryonic stem cell
24	chr5:107417200-107420200	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr5:107417200-107420400	Enhancers	ES-I3 Cell Line	embryonic stem cell
26	chr5:107417600-107417800	Enhancers	H9 Cell Line	embryonic stem cell

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