Variant report

Variant	rs13093653
Chromosome Location	chr3:112121574-112121575
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

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

rs_ID	r²[population]
rs1032239	0.92[ASN][1000 genomes]
rs13062867	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13078806	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13086327	0.86[AFR][1000 genomes]
rs13097590	0.84[EUR][1000 genomes]
rs1488264	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2078116	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2399428	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2633600	0.84[EUR][1000 genomes]
rs2633602	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2633603	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2633604	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2633605	0.96[ASN][1000 genomes]
rs2683900	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2683905	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34257022	0.97[ASN][1000 genomes]
rs35938155	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4682402	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs57756138	0.96[ASN][1000 genomes]
rs7610866	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7644713	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9647327	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9878780	0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877341	chr3:112079277-112125521	Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv1002567	chr3:112088498-112144063	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	esv2830128	chr3:112090292-112144026	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv591294	chr3:112091220-112208750	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1010208	chr3:112098542-112227212	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv997659	chr3:112099148-112135687	Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	esv3463780	chr3:112118262-112124060	Enhancers Active TSS Weak transcription Flanking Active TSS	lncRNA	n/a	inside rSNPs	n/a
8	esv3463781	chr3:112118262-112124060	Weak transcription Flanking Active TSS Enhancers Active TSS	lncRNA	n/a	inside rSNPs	n/a

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112111800-112125400	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr3:112113400-112124600	Weak transcription	HMEC	breast
3	chr3:112115200-112127600	Weak transcription	Fetal Kidney	kidney
4	chr3:112116400-112126800	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr3:112117000-112124800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr3:112117000-112125600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr3:112118400-112123200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr3:112118600-112124000	Weak transcription	Placenta	Placenta
9	chr3:112118600-112130400	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr3:112119200-112124400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr3:112120600-112123000	Active TSS	Rectal Mucosa Donor 31	rectum
12	chr3:112120800-112121600	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr3:112120800-112122200	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr3:112120800-112122400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr3:112120800-112124400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr3:112120800-112126600	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr3:112121200-112121600	Enhancers	Rectal Mucosa Donor 29	rectum
18	chr3:112121200-112122000	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr3:112121200-112122400	Enhancers	Fetal Intestine Large	intestine
20	chr3:112121200-112123200	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr3:112121200-112123200	Enhancers	iPS-18 Cell Line	embryonic stem cell
22	chr3:112121400-112123400	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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