Variant report

Variant	rs9030
Chromosome Location	chr4:110967310-110967311
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	chr4:110966949..110970337-chr4:111117054..111120581,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ELOVL6-1	chr4:110967002-110968478	NONHSAT097804

Variant related genes	Relation type
ENSG00000170522	Chromatin interaction

Extended variants
information (count: 3 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs3813825	0.99[ASN][1000 genomes]
rs6837303	0.81[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869392	chr4:110945459-111235071	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs9030	RRH	cis	cerebellum	SCAN
rs9030	RRH	cis	parietal	SCAN
rs9030	CYP2U1	cis	parietal	SCAN

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110958000-110967400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr4:110963400-110972600	Weak transcription	Duodenum Mucosa	Duodenum
3	chr4:110963400-110976200	Weak transcription	Fetal Intestine Large	intestine
4	chr4:110963600-110967600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr4:110963600-110967800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr4:110963600-110971000	Weak transcription	Liver	Liver
7	chr4:110963800-110974600	Weak transcription	Fetal Muscle Trunk	muscle
8	chr4:110964600-110967400	Weak transcription	Fetal Lung	lung
9	chr4:110964600-110967600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr4:110964600-110967600	Weak transcription	Fetal Stomach	stomach
11	chr4:110964600-110967600	Weak transcription	NH-A	brain
12	chr4:110964600-110969400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr4:110964600-110969400	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr4:110964600-110971200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr4:110964600-110971200	Weak transcription	Brain Angular Gyrus	brain
16	chr4:110964600-110971200	Weak transcription	HepG2	liver
17	chr4:110964600-110971400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr4:110964600-110972000	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr4:110964600-110972000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr4:110964600-110972000	Weak transcription	HSMM	muscle
21	chr4:110964600-110972200	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr4:110964600-110975200	Weak transcription	Fetal Heart	heart
23	chr4:110964600-110976600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr4:110964600-110976600	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr4:110964600-110981000	Weak transcription	Adipose Nuclei	Adipose
26	chr4:110964600-110981800	Weak transcription	Brain Anterior Caudate	brain
27	chr4:110964600-111004000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr4:110964800-110969600	Weak transcription	HUES64 Cell Line	embryonic stem cell
29	chr4:110964800-110970200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr4:110964800-110971400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr4:110964800-110976400	Weak transcription	Fetal Kidney	kidney
32	chr4:110964800-110982800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr4:110965000-110967800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr4:110965000-110972200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr4:110965000-110974200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
36	chr4:110965000-110982000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr4:110965200-110976600	Weak transcription	HSMMtube	muscle
38	chr4:110965200-110986600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr4:110965400-110967400	Weak transcription	Fetal Thymus	thymus
40	chr4:110965400-110967800	Weak transcription	Brain Germinal Matrix	brain
41	chr4:110965400-110970800	Weak transcription	K562	blood
42	chr4:110965400-110994200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr4:110965600-110967800	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr4:110965600-110971600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr4:110966000-110968600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr4:110966000-110971400	Weak transcription	NHLF	lung
47	chr4:110966000-110972600	Weak transcription	NHEK	skin
48	chr4:110966200-110970800	Weak transcription	Dnd41	blood
49	chr4:110966400-110967600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr4:110966600-110972200	Weak transcription	H9 Cell Line	embryonic stem cell

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