Variant report

Variant	rs9827336
Chromosome Location	chr3:194808587-194808588
allele	A/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	POLR2A	chr3:194807913-194808978	H1-hESC	embryonic stem cell:	n/a	n/a
2	POLR2A	chr3:194808016-194808649	H1-hESC	embryonic stem cell:	n/a	n/a
3	YY1	chr3:194808058-194808596	H1-hESC	embryonic stem cell:	n/a	n/a
4	FOXA1	chr3:194808572-194809002	HepG2	liver:	n/a	n/a
5	FOXA2	chr3:194808533-194809204	A549	lung:	n/a	n/a
6	YY1	chr3:194808145-194808967	NT2-D1	testis:	n/a	n/a
7	TAF1	chr3:194808583-194808877	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
XXYLT1	TF binding region

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs10804419	0.84[AMR][1000 genomes]
rs4677803	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007697	chr3:194554814-195009930	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	28 gene(s)	inside rSNPs	diseases
2	nsv536873	chr3:194554814-195009930	Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	28 gene(s)	inside rSNPs	diseases
3	nsv997779	chr3:194687093-194885936	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
4	nsv536874	chr3:194687093-194885936	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
5	nsv1009796	chr3:194737333-195124248	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
6	esv1813153	chr3:194754532-194851746	Weak transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv878136	chr3:194779412-194845226	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:194791000-194821800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr3:194801000-194814600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr3:194801200-194814800	Weak transcription	Primary T cells from cord blood	blood
4	chr3:194801200-194814800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr3:194802000-194826800	Weak transcription	Brain Cingulate Gyrus	brain
6	chr3:194803000-194814400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr3:194803200-194815800	Weak transcription	Stomach Smooth Muscle	stomach
8	chr3:194804000-194818200	Weak transcription	Right Ventricle	heart
9	chr3:194805400-194809200	Enhancers	Fetal Thymus	thymus
10	chr3:194806600-194808800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr3:194806800-194808800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr3:194806800-194826400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr3:194807000-194808800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr3:194807200-194808600	Enhancers	Fetal Heart	heart
15	chr3:194807400-194808600	Enhancers	K562	blood
16	chr3:194807600-194808800	Enhancers	Esophagus	oesophagus
17	chr3:194807600-194814400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr3:194807800-194808600	Enhancers	Fetal Intestine Large	intestine
19	chr3:194807800-194808800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
20	chr3:194807800-194808800	Enhancers	Fetal Lung	lung
21	chr3:194807800-194808800	Enhancers	Placenta	Placenta
22	chr3:194808000-194808600	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
23	chr3:194808000-194808600	Enhancers	Fetal Brain Male	brain
24	chr3:194808000-194808600	Enhancers	Fetal Brain Female	brain
25	chr3:194808000-194808800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr3:194808000-194808800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr3:194808000-194808800	Enhancers	Spleen	Spleen
28	chr3:194808000-194809000	Active TSS	Duodenum Mucosa	Duodenum
29	chr3:194808200-194808600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
30	chr3:194808200-194808600	Flanking Active TSS	Stomach Mucosa	stomach
31	chr3:194808200-194808800	Active TSS	ES-I3 Cell Line	embryonic stem cell
32	chr3:194808200-194808800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
33	chr3:194808200-194808800	Active TSS	iPS-15b Cell Line	embryonic stem cell
34	chr3:194808200-194808800	Active TSS	iPS-20b Cell Line	embryonic stem cell
35	chr3:194808200-194808800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr3:194808200-194808800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
37	chr3:194808200-194808800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr3:194808200-194808800	Active TSS	Rectal Mucosa Donor 31	rectum
39	chr3:194808200-194809000	Active TSS	H9 Cell Line	embryonic stem cell
40	chr3:194808400-194808600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
41	chr3:194808400-194808600	Flanking Active TSS	Brain Germinal Matrix	brain
42	chr3:194808400-194808600	Active TSS	Fetal Stomach	stomach
43	chr3:194808400-194808600	Enhancers	Lung	lung
44	chr3:194808400-194808800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
45	chr3:194808400-194808800	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr3:194808400-194808800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr3:194808400-194808800	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr3:194808400-194808800	Flanking Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr3:194808400-194808800	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
50	chr3:194808400-194808800	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell

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