Variant report

Variant	rs62080343
Chromosome Location	chr18:9646188-9646189
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr18:9640413..9642046-chr18:9643613..9646688,3	K562	blood:
2	chr18:9613070..9618286-chr18:9641748..9647088,7	MCF-7	breast:
3	chr18:9612489..9615116-chr18:9645929..9648400,4	MCF-7	breast:
4	chr18:9643919..9647276-chr18:9653045..9655313,3	K562	blood:
5	chr18:9645776..9648945-chr18:9653255..9655530,3	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RAB31-1	chr18:9646153-9646560	XLOC_012623

Variant related genes	Relation type
ENSG00000154845	Chromatin interaction
ENSG00000263627	Chromatin interaction
ENSG00000212572	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs17508949	1.00[AFR][1000 genomes]
rs62078860	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62080344	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62080345	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62080346	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3693417	chr18:9512985-9693638	Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv458024	chr18:9558240-9828448	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
3	nsv576448	chr18:9558240-9828448	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
4	nsv576449	chr18:9623052-9700382	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:9632400-9647600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr18:9639000-9648000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr18:9639200-9663400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr18:9642600-9647600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr18:9643400-9647400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr18:9643400-9649400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr18:9643800-9649800	Weak transcription	Fetal Muscle Leg	muscle
8	chr18:9644400-9647600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr18:9644400-9647600	Weak transcription	Hela-S3	cervix
10	chr18:9644400-9647600	Weak transcription	NH-A	brain
11	chr18:9644400-9647800	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr18:9644400-9648800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr18:9644400-9649200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr18:9644400-9649800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr18:9644600-9646400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr18:9644600-9647200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr18:9644600-9647800	Weak transcription	HUVEC	blood vessel
18	chr18:9644800-9649400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr18:9645000-9646200	Weak transcription	NHEK	skin
20	chr18:9645000-9647400	Weak transcription	HMEC	breast
21	chr18:9645000-9647600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr18:9645000-9647600	Weak transcription	Muscle Satellite Cultured Cells	--
23	chr18:9645200-9646800	Weak transcription	HepG2	liver
24	chr18:9645200-9647000	Weak transcription	Placenta	Placenta
25	chr18:9645200-9647400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr18:9645200-9647400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr18:9645200-9647400	Weak transcription	Esophagus	oesophagus
28	chr18:9645200-9647600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr18:9645200-9649000	Weak transcription	NHDF-Ad	bronchial
30	chr18:9645600-9646800	Enhancers	ES-I3 Cell Line	embryonic stem cell
31	chr18:9645800-9646200	Flanking Active TSS	A549	lung

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