Variant report

Variant	rs6858916
Chromosome Location	chr5:90397070-90397071
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:90396857..90398517-chr5:90517386..90520834,3	MCF-7	breast:
2	chr5:90217916..90220914-chr5:90395407..90397788,2	MCF-7	breast:
3	chr5:90395373..90399568-chr5:90677552..90681506,8	MCF-7	breast:
4	chr5:90389673..90399904-chr5:90673387..90683638,16	K562	blood:
5	chr5:90396862..90402705-chr5:90677587..90681217,8	K562	blood:
6	chr5:90395712..90398917-chr5:90520735..90523244,3	MCF-7	breast:
7	chr5:90396522..90401651-chr5:90675518..90681239,15	MCF-7	breast:

Variant related genes	Relation type
ENSG00000212930	Chromatin interaction
ENSG00000113369	Chromatin interaction
ENSG00000251093	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs16869469	0.91[YRI][hapmap];0.83[AFR][1000 genomes]
rs16869473	0.95[YRI][hapmap];0.97[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs4398666	0.91[YRI][hapmap];0.84[AFR][1000 genomes]
rs6452938	0.89[YRI][hapmap]
rs6873573	0.87[YRI][hapmap];0.81[AFR][1000 genomes]
rs7706968	0.87[YRI][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	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	nsv1024813	chr5:90321535-90870739	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
3	nsv537806	chr5:90321535-90870739	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:90370600-90397600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr5:90385800-90397400	Weak transcription	Fetal Lung	lung
3	chr5:90386800-90400800	Weak transcription	K562	blood
4	chr5:90387800-90397600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr5:90391800-90397600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr5:90392000-90397400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr5:90392000-90397400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr5:90392000-90400800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr5:90392200-90400800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr5:90392600-90399200	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr5:90392600-90400800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr5:90392800-90397400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr5:90392800-90397400	Weak transcription	Brain Anterior Caudate	brain
14	chr5:90392800-90400800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr5:90393000-90397400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr5:90393000-90397400	Weak transcription	Fetal Brain Male	brain
17	chr5:90393000-90397600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr5:90393200-90397400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr5:90393600-90402600	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr5:90394400-90397400	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr5:90394400-90397400	Weak transcription	Rectal Smooth Muscle	rectum
22	chr5:90394400-90398200	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr5:90394400-90402800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr5:90394600-90397600	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr5:90394600-90397600	Weak transcription	Fetal Kidney	kidney
26	chr5:90394600-90397600	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr5:90394800-90397400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
28	chr5:90394800-90397400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr5:90394800-90397400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr5:90395000-90397600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr5:90395200-90397400	Weak transcription	HUES48 Cell Line	embryonic stem cell
32	chr5:90395200-90397400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr5:90395200-90397800	Weak transcription	Colon Smooth Muscle	Colon
34	chr5:90395200-90399400	Weak transcription	NHDF-Ad	bronchial
35	chr5:90395400-90397400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr5:90395400-90406000	Weak transcription	Fetal Heart	heart
37	chr5:90395400-90415200	Weak transcription	Left Ventricle	heart
38	chr5:90395600-90400400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr5:90396200-90422800	Weak transcription	Esophagus	oesophagus
40	chr5:90396400-90397400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr5:90397000-90397400	Enhancers	A549	lung
42	chr5:90397000-90399400	Enhancers	Hela-S3	cervix

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