Variant report

Variant	rs6663614
Chromosome Location	chr1:213097941-213097942
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:213032109..213034680-chr1:213096116..213098182,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000162769	Chromatin interaction

Extended variants
information (count: 3 )
Associated
traits (count: 9 )

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

rs_ID	r²[population]
rs1890936	0.80[ASN][1000 genomes]
rs72745808	0.81[ASN][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	nsv1008383	chr1:213025546-213114894	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:9)

SNP	Gene	Cis/trans	Tissue	Source
rs6663614	LQK1	cis	parietal	SCAN
rs6663614	LQK1	cis	brain	BrainEAC
rs6663614	LOC642946	cis	multi-tissue	Pritchard
rs6663614	FLVCR1-AS1	cis	Whole Blood	GTEx
rs6663614	FLVCR1	Cis_1M	lymphoblastoid	RTeQTL
rs6663614	FLVCR1-AS1	cis	Esophagus Mucosa	GTEx
rs6663614	LQK1	Cis_1M	lymphoblastoid	RTeQTL
rs6663614	FLVCR1	cis	lymphoblastoid	seeQTL
rs6663614	FLVCR1-AS1	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:213090600-213101800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr1:213090800-213101200	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr1:213090800-213101200	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr1:213090800-213101200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr1:213091800-213100400	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr1:213092200-213098600	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr1:213092200-213101400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr1:213092600-213098200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr1:213092800-213101200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr1:213093000-213098000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr1:213094800-213101400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr1:213095000-213098000	Weak transcription	HepG2	liver
13	chr1:213095000-213101400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr1:213097200-213098800	Enhancers	Fetal Lung	lung
15	chr1:213097200-213099000	Enhancers	Fetal Muscle Leg	muscle
16	chr1:213097200-213099000	Enhancers	HSMMtube	muscle
17	chr1:213097400-213098000	Bivalent Enhancer	Adipose Nuclei	Adipose
18	chr1:213097400-213099400	Enhancers	NHLF	lung
19	chr1:213097400-213100000	Enhancers	Fetal Stomach	stomach
20	chr1:213097600-213099000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr1:213097600-213099000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
22	chr1:213097600-213099000	Enhancers	Fetal Muscle Trunk	muscle
23	chr1:213097800-213098200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr1:213097800-213098200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr1:213097800-213098600	Enhancers	Stomach Smooth Muscle	stomach
26	chr1:213097800-213098600	Enhancers	A549	lung
27	chr1:213097800-213098800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr1:213097800-213098800	Flanking Active TSS	NHDF-Ad	bronchial
29	chr1:213097800-213099000	Enhancers	HSMM	muscle
30	chr1:213097800-213101200	Weak transcription	HUES64 Cell Line	embryonic stem cell

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