Variant report

Variant	rs3739801
Chromosome Location	chr9:15462801-15462802
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:15460438..15462914-chr9:15467328..15469967,2	K562	blood:
2	chr9:15454833..15458437-chr9:15459733..15463748,4	K562	blood:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12683553	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12684388	1.00[EUR][1000 genomes]
rs12685218	0.87[EUR][1000 genomes]
rs12686545	1.00[EUR][1000 genomes]
rs13248	1.00[EUR][1000 genomes]
rs1397215	0.86[AFR][1000 genomes]
rs16933311	0.87[EUR][1000 genomes]
rs16933316	0.87[EUR][1000 genomes]
rs16933318	0.87[EUR][1000 genomes]
rs16933320	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16933348	0.89[EUR][1000 genomes]
rs2277191	0.89[EUR][1000 genomes]
rs4741503	0.90[AFR][1000 genomes]
rs4741506	0.85[AFR][1000 genomes]
rs55771541	0.89[EUR][1000 genomes]
rs59639757	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs60046377	1.00[EUR][1000 genomes]
rs73644655	0.89[EUR][1000 genomes]
rs73644657	0.89[EUR][1000 genomes]
rs7863046	0.87[EUR][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	nsv517975	chr9:15286446-15534070	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	nsv892626	chr9:15389610-15694690	Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv892627	chr9:15397969-15909450	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv892628	chr9:15420805-15528290	Strong transcription Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15426400-15468200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr9:15433400-15492400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr9:15434000-15464000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr9:15438400-15469800	Strong transcription	Primary B cells from peripheral blood	blood
5	chr9:15438800-15468800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr9:15439000-15492200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
7	chr9:15442000-15463000	Strong transcription	Sigmoid Colon	Sigmoid Colon
8	chr9:15442200-15469400	Strong transcription	Duodenum Mucosa	Duodenum
9	chr9:15442400-15464400	Strong transcription	Fetal Muscle Trunk	muscle
10	chr9:15442600-15478200	Strong transcription	Primary neutrophils fromperipheralblood	blood
11	chr9:15442600-15478600	Strong transcription	Primary T helper cells fromperipheralblood	blood
12	chr9:15442800-15508400	Strong transcription	Fetal Thymus	thymus
13	chr9:15443000-15463800	Strong transcription	Rectal Mucosa Donor 31	rectum
14	chr9:15443000-15470200	Strong transcription	Rectal Mucosa Donor 29	rectum
15	chr9:15443000-15478000	Strong transcription	Monocytes-CD14+_RO01746	blood
16	chr9:15443000-15482200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
17	chr9:15443200-15465600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr9:15443200-15469200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr9:15443200-15478000	Strong transcription	Primary monocytes fromperipheralblood	blood
20	chr9:15443200-15479600	Strong transcription	Primary T helper cells PMA-I stimulated	--
21	chr9:15443200-15490400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr9:15443200-15492400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr9:15443400-15466400	Strong transcription	HSMM	muscle
24	chr9:15443400-15467400	Strong transcription	Fetal Brain Female	brain
25	chr9:15443400-15469000	Strong transcription	Osteobl	bone
26	chr9:15443400-15469600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr9:15443400-15469600	Strong transcription	Fetal Intestine Large	intestine
28	chr9:15443400-15479200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr9:15443600-15469000	Strong transcription	Liver	Liver
30	chr9:15443600-15470400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr9:15443800-15492200	Strong transcription	HUES64 Cell Line	embryonic stem cell
32	chr9:15444000-15467400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr9:15444000-15482000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr9:15444000-15487600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr9:15444000-15492400	Strong transcription	HUES48 Cell Line	embryonic stem cell
36	chr9:15444400-15495200	Weak transcription	Fetal Heart	heart
37	chr9:15444600-15491200	Strong transcription	HUES6 Cell Line	embryonic stem cell
38	chr9:15444800-15482200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr9:15445400-15468600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
40	chr9:15446800-15468200	Weak transcription	Pancreatic Islets	Pancreatic Islet
41	chr9:15447000-15509800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr9:15447400-15469800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr9:15448200-15466000	Weak transcription	Gastric	stomach
44	chr9:15448200-15472200	Weak transcription	Aorta	Aorta
45	chr9:15448200-15482200	Weak transcription	Psoas Muscle	Psoas
46	chr9:15448400-15480000	Weak transcription	Stomach Mucosa	stomach
47	chr9:15448600-15476400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr9:15449000-15492200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr9:15449800-15478000	Strong transcription	Fetal Lung	lung
50	chr9:15449800-15509000	Weak transcription	Small Intestine	intestine

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