Variant report

Variant	rs2438346
Chromosome Location	chr5:90177432-90177433
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:90162592..90164347-chr5:90175499..90178315,3	MCF-7	breast:
2	chr5:90175343..90178087-chr5:90180223..90182478,2	MCF-7	breast:

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11959536	1.00[EUR][1000 genomes]
rs12109166	1.00[EUR][1000 genomes]
rs2367281	1.00[EUR][1000 genomes]
rs2438336	1.00[EUR][1000 genomes]
rs2438341	1.00[EUR][1000 genomes]
rs4916693	1.00[EUR][1000 genomes]
rs6878024	1.00[EUR][1000 genomes]
rs73179344	1.00[EUR][1000 genomes]
rs7738012	1.00[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	nsv529544	chr5:89523963-90412409	Weak transcription Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv882367	chr5:89956991-90209824	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
3	nsv1015449	chr5:89968626-90219398	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
4	nsv517049	chr5:90003131-90262475	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:90163600-90194400	Weak transcription	Pancreas	Pancrea
2	chr5:90165400-90188800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr5:90168200-90186000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr5:90171600-90177600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr5:90172600-90179000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr5:90172600-90184400	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr5:90174600-90185600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr5:90174800-90183400	Weak transcription	Liver	Liver
9	chr5:90175000-90177800	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr5:90175000-90179000	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr5:90175000-90179000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr5:90175000-90184400	Weak transcription	K562	blood
13	chr5:90175200-90177600	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr5:90175200-90177800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr5:90175200-90181400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr5:90175200-90182800	Weak transcription	A549	lung
17	chr5:90176400-90178000	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr5:90176400-90180800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr5:90176800-90179800	Enhancers	HUES64 Cell Line	embryonic stem cell
20	chr5:90176800-90180400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr5:90177000-90180000	Enhancers	iPS-15b Cell Line	embryonic stem cell
22	chr5:90177000-90180000	Enhancers	iPS-18 Cell Line	embryonic stem cell
23	chr5:90177200-90178800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr5:90177400-90179800	Enhancers	iPS-20b Cell Line	embryonic stem cell

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