Variant report

Variant	rs6878600
Chromosome Location	chr5:80954513-80954514
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10035410	0.91[ASN][1000 genomes]
rs10061125	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10514226	0.96[ASN][1000 genomes]
rs10514228	0.86[ASN][1000 genomes]
rs10942273	0.84[ASN][1000 genomes]
rs10942280	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12055228	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1436497	0.94[ASN][1000 genomes]
rs28416701	0.84[ASN][1000 genomes]
rs28635132	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4283766	0.84[ASN][1000 genomes]
rs55998108	0.81[ASN][1000 genomes]
rs58940374	0.89[ASN][1000 genomes]
rs60005403	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9885520	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882233	chr5:80849084-81049187	ZNF genes & repeats Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv882234	chr5:80853708-80966666	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv525437	chr5:80876359-80964452	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv462222	chr5:80900719-80964452	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv598752	chr5:80900719-80964452	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv882235	chr5:80909132-81006061	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv830361	chr5:80909811-81080409	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv882236	chr5:80930992-80999768	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv527374	chr5:80938095-80964452	Enhancers Strong transcription Weak transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv882237	chr5:80938489-81006061	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:80921200-80983000	Weak transcription	Aorta	Aorta
2	chr5:80924200-80962800	Weak transcription	Ovary	ovary
3	chr5:80924800-80972000	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr5:80932400-80963000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr5:80938800-80965200	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr5:80939200-80962400	Weak transcription	Fetal Stomach	stomach
7	chr5:80940600-80955600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr5:80942800-80962800	Weak transcription	Right Atrium	heart
9	chr5:80945600-80985400	Weak transcription	Fetal Kidney	kidney
10	chr5:80946000-80958200	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr5:80946200-80972800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr5:80948000-80971000	Weak transcription	Primary T cells from cord blood	blood
13	chr5:80950200-80975600	Weak transcription	Thymus	Thymus
14	chr5:80950400-80962600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr5:80951600-80956000	Weak transcription	Primary hematopoietic stem cells	blood
16	chr5:80951600-80960800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr5:80951800-80970800	Weak transcription	Primary B cells from cord blood	blood
18	chr5:80953000-80956600	Weak transcription	Fetal Thymus	thymus
19	chr5:80953600-80966800	Weak transcription	Fetal Lung	lung
20	chr5:80954000-80954600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr5:80954000-80954600	ZNF genes & repeats	GM12878-XiMat	blood
22	chr5:80954400-80954600	Enhancers	Dnd41	blood
23	chr5:80954400-80962600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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