Variant report

Variant	rs3101531
Chromosome Location	chr8:107668532-107668533
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	chr8:107628207..107632288-chr8:107667853..107671892,6	MCF-7	breast:
2	chr8:107646860..107649484-chr8:107667686..107669336,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ABRA-1	chr8:107668339-107668593	ENSG00000253582.1

Variant related genes	Relation type
ENSG00000164830	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11996457	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs12675956	1.00[CHB][hapmap]
rs12681427	1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[AMR][1000 genomes]
rs1542644	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs2126579	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs2126582	0.83[JPT][hapmap]
rs2881423	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs3101532	0.85[ASN][1000 genomes]
rs3101533	0.80[ASN][1000 genomes]
rs3101534	0.85[ASN][1000 genomes]
rs3101538	0.84[CHB][hapmap];0.87[JPT][hapmap]
rs3102431	0.85[ASN][1000 genomes]
rs3102432	1.00[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs3102434	1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs3110429	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3110438	0.82[JPT][hapmap]
rs3132806	1.00[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs3132807	0.85[ASN][1000 genomes]
rs3134127	0.89[AMR][1000 genomes]
rs3134129	0.81[ASN][1000 genomes]
rs6983210	1.00[CHB][hapmap]
rs7000202	0.85[ASN][1000 genomes]
rs7817274	1.00[CHB][hapmap];0.94[JPT][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	nsv533134	chr8:107307812-107670002	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv831419	chr8:107624709-107827801	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv6342	chr8:107644092-107688898	Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:107601600-107669600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr8:107658200-107668800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr8:107658600-107668600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr8:107661400-107669400	Weak transcription	Esophagus	oesophagus
5	chr8:107661600-107668600	Weak transcription	Stomach Mucosa	stomach
6	chr8:107662800-107668800	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr8:107666400-107668600	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr8:107666600-107669000	Weak transcription	NHLF	lung
9	chr8:107667000-107668800	Enhancers	GM12878-XiMat	blood
10	chr8:107667000-107671400	Active TSS	Rectal Mucosa Donor 29	rectum
11	chr8:107667200-107668800	Enhancers	NHEK	skin
12	chr8:107667200-107669200	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr8:107667600-107669000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr8:107667800-107668800	Enhancers	Duodenum Mucosa	Duodenum
15	chr8:107667800-107668800	Weak transcription	Fetal Intestine Small	intestine
16	chr8:107667800-107669200	Weak transcription	Fetal Intestine Large	intestine
17	chr8:107667800-107669400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
18	chr8:107668000-107669000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr8:107668200-107668800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr8:107668400-107668600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr8:107668400-107668600	Enhancers	Colonic Mucosa	Colon
22	chr8:107668400-107668600	Active TSS	HMEC	breast
23	chr8:107668400-107669000	Enhancers	Colon Smooth Muscle	Colon
24	chr8:107668400-107669200	Enhancers	Primary monocytes fromperipheralblood	blood
25	chr8:107668400-107669200	Enhancers	Fetal Lung	lung
26	chr8:107668400-107669200	Enhancers	Fetal Stomach	stomach
27	chr8:107668400-107669200	Enhancers	Skeletal Muscle Female	skeletal muscle

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