Variant report

Variant	rs7859769
Chromosome Location	chr9:110077258-110077259
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:110045249..110048106-chr9:110077151..110079767,3	MCF-7	breast:
2	chr9:110044399..110049612-chr9:110071012..110080286,12	K562	blood:

Variant related genes	Relation type
ENSG00000119318	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10521083	0.94[ASN][1000 genomes]
rs10732368	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10739234	0.89[ASN][1000 genomes]
rs10739237	0.87[ASN][1000 genomes]
rs10739238	0.90[ASN][1000 genomes]
rs10759222	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10759223	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10759225	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10759226	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10759227	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10816486	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10816487	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10816492	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10816493	0.94[ASN][1000 genomes]
rs10978798	0.93[ASN][1000 genomes]
rs1323808	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1323809	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1535765	0.91[ASN][1000 genomes]
rs1805332	0.94[ASN][1000 genomes]
rs1805334	0.94[ASN][1000 genomes]
rs1805335	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1886134	0.94[ASN][1000 genomes]
rs1969798	0.90[ASN][1000 genomes]
rs1980725	0.91[ASN][1000 genomes]
rs2147071	0.91[ASN][1000 genomes]
rs2147072	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2417783	0.84[ASN][1000 genomes]
rs2417785	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3818367	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4278207	0.91[ASN][1000 genomes]
rs4625087	0.89[ASN][1000 genomes]
rs4978404	0.94[ASN][1000 genomes]
rs4978406	0.94[ASN][1000 genomes]
rs4978844	0.94[ASN][1000 genomes]
rs4978849	0.94[ASN][1000 genomes]
rs7019341	0.92[ASN][1000 genomes]
rs7025563	0.92[ASN][1000 genomes]
rs7029997	0.91[ASN][1000 genomes]
rs7030169	0.91[ASN][1000 genomes]
rs7030555	0.91[ASN][1000 genomes]
rs7030631	0.91[ASN][1000 genomes]
rs7035611	0.89[ASN][1000 genomes]
rs7035725	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7038737	0.91[ASN][1000 genomes]
rs7039041	0.91[ASN][1000 genomes]
rs7041497	0.94[ASN][1000 genomes]
rs7043962	0.94[ASN][1000 genomes]
rs7046950	0.91[ASN][1000 genomes]
rs7856112	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7856227	0.94[ASN][1000 genomes]
rs942292	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs942293	0.94[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	nsv869351	chr9:109593212-110191170	Active TSS Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv530948	chr9:109760752-110413602	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv519266	chr9:110049477-110085255	Strong transcription Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7859769	RAD23B	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:110051600-110079200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:110057200-110079200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr9:110058600-110098600	Weak transcription	Small Intestine	intestine
4	chr9:110061400-110094600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr9:110062000-110078000	Strong transcription	HUES64 Cell Line	embryonic stem cell
6	chr9:110062400-110077800	Strong transcription	HUES48 Cell Line	embryonic stem cell
7	chr9:110062400-110078600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
8	chr9:110062600-110078800	Strong transcription	Monocytes-CD14+_RO01746	blood
9	chr9:110062800-110077600	Strong transcription	HUES6 Cell Line	embryonic stem cell
10	chr9:110063000-110078200	Strong transcription	Primary monocytes fromperipheralblood	blood
11	chr9:110063000-110079200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr9:110063200-110077400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
13	chr9:110063200-110077400	Strong transcription	Primary B cells from peripheral blood	blood
14	chr9:110063200-110077800	Strong transcription	Placenta	Placenta
15	chr9:110063400-110077800	Strong transcription	Fetal Lung	lung
16	chr9:110063600-110078600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr9:110063800-110079200	Strong transcription	Osteobl	bone
18	chr9:110063800-110079400	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr9:110064000-110085000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr9:110065200-110089200	Strong transcription	Fetal Thymus	thymus
21	chr9:110065400-110077800	Strong transcription	Primary B cells from cord blood	blood
22	chr9:110065600-110098600	Strong transcription	Dnd41	blood
23	chr9:110067000-110077800	Strong transcription	Rectal Mucosa Donor 31	rectum
24	chr9:110068600-110077400	Strong transcription	HUVEC	blood vessel
25	chr9:110070200-110104400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr9:110070400-110085000	Weak transcription	Colonic Mucosa	Colon
27	chr9:110070400-110099400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr9:110070600-110079400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr9:110071400-110077600	Strong transcription	HepG2	liver
30	chr9:110071400-110084000	Weak transcription	Brain Hippocampus Middle	brain
31	chr9:110071400-110103000	Weak transcription	Stomach Mucosa	stomach
32	chr9:110071800-110079800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr9:110071800-110084400	Weak transcription	Colon Smooth Muscle	Colon
34	chr9:110072600-110077800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr9:110072800-110077800	Strong transcription	Liver	Liver
36	chr9:110072800-110078400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
37	chr9:110073800-110080000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr9:110074000-110077400	Strong transcription	Primary neutrophils fromperipheralblood	blood
39	chr9:110074000-110077800	Strong transcription	Fetal Kidney	kidney
40	chr9:110074000-110078400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr9:110074200-110077600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr9:110074200-110077600	Strong transcription	Fetal Muscle Trunk	muscle
43	chr9:110074200-110082600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr9:110074200-110083000	Strong transcription	Rectal Mucosa Donor 29	rectum
45	chr9:110074200-110083200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr9:110074200-110088200	Strong transcription	Fetal Intestine Large	intestine
47	chr9:110074400-110077600	Strong transcription	Brain Anterior Caudate	brain
48	chr9:110074600-110077800	Strong transcription	Duodenum Smooth Muscle	Duodenum
49	chr9:110074800-110077600	Strong transcription	Placenta Amnion	Placenta Amnion
50	chr9:110075000-110077800	Strong transcription	Muscle Satellite Cultured Cells	--

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