Variant report

Variant	rs13092341
Chromosome Location	chr3:150096153-150096154
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:7)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:150095471..150097889-chr3:150125779..150128090,2	MCF-7	breast:
2	chr3:150093390..150097610-chr3:150100766..150105118,7	MCF-7	breast:
3	chr3:150093712..150096521-chr3:150152654..150154725,2	K562	blood:
4	chr3:150094478..150097287-chr3:150107822..150109795,2	MCF-7	breast:
5	chr3:150087949..150089476-chr3:150093898..150096286,2	MCF-7	breast:
6	chr3:150086519..150091866-chr3:150093461..150097312,5	K562	blood:
7	chr3:150064599..150068049-chr3:150092339..150097012,5	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TSC22D2-4	chr3:150096117-150096250	NONHSAT092685

No data

Variant related genes	Relation type
ENSG00000196428	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11706784	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11719654	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12054166	0.88[ASN][1000 genomes]
rs13069723	0.81[ASN][1000 genomes]
rs13092207	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16862648	0.81[ASN][1000 genomes]
rs2068659	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28517277	0.89[ASN][1000 genomes]
rs33988810	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34192407	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34384576	0.96[ASN][1000 genomes]
rs34518530	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34616287	0.92[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs34991086	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35704634	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35725711	0.92[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs35982655	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56040746	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62269065	0.81[ASN][1000 genomes]
rs9682043	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829755	chr3:149992023-150156001	Enhancers Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	esv1828464	chr3:150096071-150149868	Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150086200-150102200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:150089600-150097400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr3:150090200-150124600	Weak transcription	Aorta	Aorta
4	chr3:150090800-150096200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr3:150090800-150096600	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr3:150090800-150097400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr3:150090800-150107000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr3:150090800-150108600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr3:150090800-150111000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr3:150090800-150111000	Weak transcription	NHEK	skin
11	chr3:150091800-150101800	Weak transcription	Primary B cells from cord blood	blood
12	chr3:150093200-150100600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr3:150094600-150097600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr3:150094600-150102400	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr3:150094600-150102600	Weak transcription	Left Ventricle	heart
16	chr3:150094600-150106200	Weak transcription	HSMM	muscle
17	chr3:150094600-150108800	Weak transcription	NHLF	lung
18	chr3:150094800-150097000	Weak transcription	Ovary	ovary
19	chr3:150094800-150101800	Weak transcription	K562	blood
20	chr3:150094800-150102200	Weak transcription	Fetal Intestine Large	intestine
21	chr3:150094800-150108200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr3:150095600-150096200	Enhancers	Rectal Mucosa Donor 31	rectum
23	chr3:150095800-150096200	Enhancers	A549	lung
24	chr3:150096000-150096200	Enhancers	Fetal Intestine Small	intestine
25	chr3:150096000-150096200	Enhancers	Gastric	stomach
26	chr3:150096000-150096200	Enhancers	Stomach Mucosa	stomach
27	chr3:150096000-150097600	Enhancers	H9 Cell Line	embryonic stem cell
28	chr3:150096000-150098000	Enhancers	ES-I3 Cell Line	embryonic stem cell
29	chr3:150096000-150105200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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