Variant report

Variant	rs3792841
Chromosome Location	chr5:146786010-146786011
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CEBPB	chr5:146785992-146786035	H1-hESC	embryonic stem cell:	n/a	chr5:146786015-146786026
2	POLR2A	chr5:146783239-146787438	H1-hESC	embryonic stem cell:	n/a	n/a
3	CEBPB	chr5:146785969-146786086	A549	lung:	n/a	chr5:146786015-146786026
4	POLR2A	chr5:146785947-146786984	H1-neurons	neurons:	n/a	n/a
5	CEBPB	chr5:146785850-146786156	HepG2	liver:	n/a	chr5:146786015-146786026
6	CEBPB	chr5:146785856-146786350	IMR90	lung:	n/a	chr5:146786015-146786026

Variant related genes	Relation type
DPYSL3	TF binding region

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs11167988	0.81[AMR][1000 genomes]
rs11167989	0.86[AMR][1000 genomes]
rs12513884	0.86[AMR][1000 genomes]
rs12514302	0.86[JPT][hapmap];0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12515377	0.87[CHB][hapmap];0.85[JPT][hapmap];0.94[ASN][1000 genomes]
rs12518292	0.90[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12653560	0.87[CHB][hapmap];0.85[JPT][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1432853	0.87[CHB][hapmap];0.93[JPT][hapmap];0.98[ASN][1000 genomes]
rs1432854	0.93[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1432855	0.93[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1432856	0.93[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1432857	0.93[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs17106560	0.81[AMR][1000 genomes]
rs17106572	0.81[AMR][1000 genomes]
rs17106590	0.86[AMR][1000 genomes]
rs17106592	0.85[JPT][hapmap];0.86[AMR][1000 genomes]
rs17106597	0.86[AMR][1000 genomes]
rs17106606	0.86[AMR][1000 genomes]
rs17106679	0.93[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs17106682	0.93[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs17106683	0.93[CHB][hapmap];0.93[JPT][hapmap];0.98[ASN][1000 genomes]
rs17106686	0.93[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs17106688	0.93[CHB][hapmap];0.93[JPT][hapmap];0.98[ASN][1000 genomes]
rs17106689	0.93[CHB][hapmap];0.93[JPT][hapmap];0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs17106690	0.93[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs17106698	0.87[CHB][hapmap];0.85[JPT][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs17106701	0.87[CHB][hapmap];0.86[JPT][hapmap];0.94[ASN][1000 genomes]
rs17106709	0.81[AMR][1000 genomes]
rs2288800	0.93[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2288805	0.86[CHB][hapmap];0.85[JPT][hapmap];0.90[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2288809	0.85[CHB][hapmap];0.85[JPT][hapmap];0.90[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2304043	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2304047	0.90[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2895681	0.86[AMR][1000 genomes]
rs3213857	0.86[CHB][hapmap];0.93[JPT][hapmap];0.90[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs3749721	0.85[JPT][hapmap];0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs3792837	0.86[AMR][1000 genomes]
rs3792839	0.93[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3792840	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3792843	0.91[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs3792844	0.93[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs3792845	0.93[CHB][hapmap];0.93[JPT][hapmap];0.98[ASN][1000 genomes]
rs3792846	0.93[CHB][hapmap];0.93[JPT][hapmap];0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs3805533	0.85[JPT][hapmap];0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs3805534	0.80[CHB][hapmap];0.86[JPT][hapmap];0.91[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3805535	0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs3805538	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3805539	0.93[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs3805540	0.93[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs3805542	0.87[JPT][hapmap];0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs3805543	0.93[CHB][hapmap];0.92[JPT][hapmap];0.93[ASN][1000 genomes]
rs3805544	0.84[CHB][hapmap];0.90[JPT][hapmap];0.94[ASN][1000 genomes]
rs3805545	0.87[CHB][hapmap];0.86[JPT][hapmap];0.94[ASN][1000 genomes]
rs3805546	0.87[CHB][hapmap];0.86[JPT][hapmap];0.94[ASN][1000 genomes]
rs3816012	0.93[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4642416	0.86[AMR][1000 genomes]
rs6891468	0.93[CHB][hapmap];0.93[JPT][hapmap];0.98[ASN][1000 genomes]
rs6899104	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs7714137	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs972302	0.86[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1015804	chr5:146066000-146788233	Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv537915	chr5:146066000-146788233	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv519847	chr5:146166378-146812647	Bivalent/Poised TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv599938	chr5:146169511-146806365	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv869238	chr5:146179403-146787986	Enhancers Weak transcription Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:146767800-146796600	Strong transcription	Brain Germinal Matrix	brain
2	chr5:146769400-146800600	Strong transcription	HUES64 Cell Line	embryonic stem cell
3	chr5:146769800-146810400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
4	chr5:146770000-146800600	Strong transcription	H1 Cell Line	embryonic stem cell
5	chr5:146770200-146805200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
6	chr5:146770200-146810800	Strong transcription	HUES48 Cell Line	embryonic stem cell
7	chr5:146770400-146796600	Strong transcription	Fetal Brain Female	brain
8	chr5:146770400-146800600	Strong transcription	HUES6 Cell Line	embryonic stem cell
9	chr5:146770600-146798200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
10	chr5:146770600-146800400	Strong transcription	ES-I3 Cell Line	embryonic stem cell
11	chr5:146771600-146786600	Weak transcription	Gastric	stomach
12	chr5:146772800-146795600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr5:146773600-146788200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr5:146773600-146800600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr5:146774000-146799400	Strong transcription	iPS-15b Cell Line	embryonic stem cell
16	chr5:146774200-146796800	Weak transcription	Primary hematopoietic stem cells	blood
17	chr5:146775400-146797000	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr5:146776200-146796000	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr5:146777600-146796800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr5:146777600-146800600	Strong transcription	H9 Cell Line	embryonic stem cell
21	chr5:146777800-146790400	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr5:146779800-146798400	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr5:146780400-146796800	Weak transcription	Spleen	Spleen
24	chr5:146780800-146796600	Weak transcription	Duodenum Mucosa	Duodenum
25	chr5:146782400-146790600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr5:146782800-146791800	Enhancers	Fetal Heart	heart
27	chr5:146783200-146786800	Genic enhancers	Duodenum Smooth Muscle	Duodenum
28	chr5:146783400-146796200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr5:146783400-146800800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr5:146784000-146787000	Enhancers	NHDF-Ad	bronchial
31	chr5:146784200-146790200	Weak transcription	Fetal Lung	lung
32	chr5:146784400-146786800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr5:146784400-146787600	Genic enhancers	Osteobl	bone
34	chr5:146784400-146788400	Genic enhancers	Ovary	ovary
35	chr5:146784400-146791200	Weak transcription	Brain Anterior Caudate	brain
36	chr5:146784400-146792600	Weak transcription	Brain Cingulate Gyrus	brain
37	chr5:146784400-146797000	Weak transcription	Brain Angular Gyrus	brain
38	chr5:146784600-146786200	Weak transcription	HSMMtube	muscle
39	chr5:146784600-146786400	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr5:146784600-146786400	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr5:146784600-146786400	Strong transcription	Fetal Muscle Trunk	muscle
42	chr5:146784600-146786600	Weak transcription	HMEC	breast
43	chr5:146784600-146787000	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr5:146784600-146790600	Weak transcription	Placenta	Placenta
45	chr5:146784600-146794400	Weak transcription	Brain Inferior Temporal Lobe	brain
46	chr5:146784600-146796800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr5:146784600-146796800	Weak transcription	Colonic Mucosa	Colon
48	chr5:146784600-146797000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr5:146784600-146797000	Weak transcription	Esophagus	oesophagus
50	chr5:146784600-146800400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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