Variant report

Variant	rs6878024
Chromosome Location	chr5:90205182-90205183
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:90205148..90207152-chr5:90211659..90214340,2	MCF-7	breast:

Extended variants
information (count: 14 )
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]
rs2438346	1.00[EUR][1000 genomes]
rs4916693	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73179344	1.00[EUR][1000 genomes]
rs7738012	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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
5	esv2754394	chr5:90181320-90225796	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:90185000-90226600	Weak transcription	K562	blood
2	chr5:90186400-90218000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr5:90195800-90207000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr5:90201200-90205800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr5:90204400-90205200	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr5:90204400-90205200	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr5:90204400-90205200	Enhancers	Fetal Kidney	kidney
8	chr5:90204400-90205600	Enhancers	HUVEC	blood vessel
9	chr5:90204600-90205200	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr5:90204600-90205400	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr5:90204600-90205600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr5:90204600-90206200	Enhancers	Liver	Liver
13	chr5:90204600-90208200	Enhancers	HepG2	liver
14	chr5:90204800-90205200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr5:90204800-90205400	Enhancers	H1 Cell Line	embryonic stem cell
16	chr5:90204800-90205400	Enhancers	Muscle Satellite Cultured Cells	--
17	chr5:90204800-90205400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr5:90204800-90205400	Enhancers	Placenta	Placenta
19	chr5:90204800-90205400	Enhancers	Hela-S3	cervix
20	chr5:90204800-90206000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
21	chr5:90204800-90206200	Enhancers	iPS-15b Cell Line	embryonic stem cell
22	chr5:90204800-90206400	Enhancers	ES-I3 Cell Line	embryonic stem cell
23	chr5:90204800-90208800	Enhancers	A549	lung
24	chr5:90205000-90205400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr5:90205000-90205400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr5:90205000-90205400	Enhancers	Esophagus	oesophagus
27	chr5:90205000-90205400	Enhancers	Fetal Muscle Leg	muscle
28	chr5:90205000-90205400	Enhancers	Right Atrium	heart
29	chr5:90205000-90225000	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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