Variant report

Variant	rs1531163
Chromosome Location	chr15:75113083-75113084
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:75074174..75075858-chr15:75112738..75114767,2	MCF-7	breast:
2	chr15:75072350..75078841-chr15:75107920..75114107,12	MCF-7	breast:
3	chr15:75074461..75076806-chr15:75112062..75114585,2	K562	blood:
4	chr15:75111167..75114133-chr15:75116068..75118230,2	K562	blood:
5	chr15:75109449..75112132-chr15:75112266..75114045,2	MCF-7	breast:
6	chr15:75108356..75114001-chr15:75126388..75130558,9	MCF-7	breast:
7	chr15:75112517..75114870-chr15:75115640..75117170,2	MCF-7	breast:
8	chr15:75106165..75113668-chr15:75132311..75136608,10	MCF-7	breast:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LMAN1L-1	chr15:75111808-75113108	NONHSAT047272

No data

Variant related genes	Relation type
ENSG00000140474	Chromatin interaction
ENSG00000103653	Chromatin interaction
ENSG00000140506	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs12438333	1.00[CEU][hapmap]
rs12439525	1.00[CEU][hapmap]
rs12439944	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs12441444	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12443172	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12593251	0.92[CHB][hapmap];0.88[JPT][hapmap];0.91[ASN][1000 genomes]
rs12594158	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1531162	1.00[CEU][hapmap];0.92[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16972714	0.92[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs16973172	1.00[CEU][hapmap]
rs2229730	1.00[CEU][hapmap];0.92[CHB][hapmap];0.85[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2305667	0.84[GIH][hapmap]
rs28397782	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28431073	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28577988	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28583379	0.91[ASN][1000 genomes]
rs2899827	1.00[CEU][hapmap];0.92[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3743484	0.81[JPT][hapmap]
rs3743486	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3743487	1.00[CEU][hapmap];0.93[GIH][hapmap];0.93[TSI][hapmap]
rs3803568	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[GIH][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4886409	1.00[CEU][hapmap];0.93[MEX][hapmap];0.87[TSI][hapmap]
rs4886620	1.00[CEU][hapmap];0.92[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7163332	1.00[CEU][hapmap];0.86[TSI][hapmap]
rs7165811	1.00[CEU][hapmap];0.86[TSI][hapmap]
rs8039046	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9796628	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][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	nsv904380	chr15:74869438-75142761	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	nsv833055	chr15:74988344-75166288	Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv520527	chr15:75108636-75122856	Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv904381	chr15:75108636-75242155	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:75101800-75113200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr15:75107200-75114400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr15:75109400-75113800	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr15:75109600-75113200	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr15:75109600-75113600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr15:75109800-75116800	Weak transcription	Brain Anterior Caudate	brain
7	chr15:75110800-75115000	Enhancers	Primary B cells from peripheral blood	blood
8	chr15:75111000-75113800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
9	chr15:75111400-75113200	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr15:75111400-75113800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr15:75111400-75128000	Weak transcription	Gastric	stomach
12	chr15:75111600-75113400	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr15:75111600-75113600	Weak transcription	Primary monocytes fromperipheralblood	blood
14	chr15:75111800-75113200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr15:75111800-75113800	Weak transcription	A549	lung
16	chr15:75112000-75113600	Weak transcription	Duodenum Mucosa	Duodenum
17	chr15:75112200-75113200	Weak transcription	Hela-S3	cervix
18	chr15:75112200-75113400	Genic enhancers	Spleen	Spleen
19	chr15:75112400-75114400	Enhancers	Primary B cells from cord blood	blood
20	chr15:75112400-75114800	Enhancers	Fetal Brain Male	brain
21	chr15:75112600-75113600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr15:75112600-75114200	Bivalent Enhancer	Placenta	Placenta
23	chr15:75112600-75114400	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr15:75112800-75113200	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr15:75112800-75113400	Enhancers	Fetal Brain Female	brain
26	chr15:75112800-75114400	Enhancers	GM12878-XiMat	blood
27	chr15:75113000-75113600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr15:75113000-75113600	Bivalent/Poised TSS	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr15:75113000-75113600	Enhancers	Brain Germinal Matrix	brain
30	chr15:75113000-75113600	Enhancers	Right Atrium	heart
31	chr15:75113000-75114000	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr15:75113000-75114200	Enhancers	Esophagus	oesophagus
33	chr15:75113000-75114400	Enhancers	HUES6 Cell Line	embryonic stem cell
34	chr15:75113000-75114400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
35	chr15:75113000-75115000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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