Variant report

Variant	rs3898058
Chromosome Location	chr5:36148258-36148259
allele	A/G
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	FOS	chr5:36147479-36148407	HUVEC	blood vessel:	n/a	chr5:36148057-36148068 chr5:36148011-36148022

Variant related genes	Relation type
SKP2	TF binding region
MIR580	TF binding region

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1113073	0.90[ASN][1000 genomes]
rs12513526	1.00[CHB][hapmap];0.87[JPT][hapmap];0.84[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs12522542	1.00[ASN][1000 genomes]
rs12654974	0.90[ASN][1000 genomes]
rs12655763	1.00[CHB][hapmap];0.87[JPT][hapmap];0.98[ASN][1000 genomes]
rs12658867	1.00[CHB][hapmap];0.82[JPT][hapmap];0.98[ASN][1000 genomes]
rs13156321	1.00[CHB][hapmap];0.87[JPT][hapmap];0.98[ASN][1000 genomes]
rs13163292	0.90[ASN][1000 genomes]
rs13177876	1.00[CHB][hapmap];0.82[JPT][hapmap];0.98[ASN][1000 genomes]
rs13181789	0.84[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs1353269	0.84[AFR][1000 genomes]
rs1393158	0.90[ASN][1000 genomes]
rs1501817	0.84[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs17343598	1.00[CHB][hapmap];0.82[JPT][hapmap];0.98[ASN][1000 genomes]
rs1827369	0.93[CHB][hapmap];0.87[JPT][hapmap];0.90[ASN][1000 genomes]
rs1827371	0.93[CHB][hapmap];0.87[JPT][hapmap];0.90[ASN][1000 genomes]
rs2012367	0.84[AFR][1000 genomes]
rs267766	1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[ASN][1000 genomes]
rs34165875	0.84[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs34783816	0.84[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs35746165	0.90[ASN][1000 genomes]
rs36064347	1.00[ASN][1000 genomes]
rs3913488	0.98[ASN][1000 genomes]
rs4021314	0.84[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs40499	0.98[ASN][1000 genomes]
rs4415106	1.00[CHB][hapmap];0.87[JPT][hapmap];0.84[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs4869468	0.99[ASN][1000 genomes]
rs766064	0.93[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs7705825	0.90[ASN][1000 genomes]
rs7705975	0.90[ASN][1000 genomes]
rs7706216	0.90[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	nsv830262	chr5:36074311-36293872	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	63 gene(s)	inside rSNPs	diseases
2	nsv4795	chr5:36106115-36150407	Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:36101200-36150800	Weak transcription	Colonic Mucosa	Colon
2	chr5:36108400-36150600	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr5:36117400-36150200	Weak transcription	Colon Smooth Muscle	Colon
4	chr5:36126800-36150400	Weak transcription	Fetal Heart	heart
5	chr5:36128200-36150800	Weak transcription	Psoas Muscle	Psoas
6	chr5:36129400-36149200	Weak transcription	Fetal Brain Male	brain
7	chr5:36129800-36148400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr5:36132600-36150800	Weak transcription	Right Ventricle	heart
9	chr5:36134200-36150400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr5:36136600-36149400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr5:36136600-36150200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr5:36136600-36150600	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr5:36136600-36150600	Weak transcription	HSMMtube	muscle
14	chr5:36139000-36150600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr5:36140400-36150600	Weak transcription	NHLF	lung
16	chr5:36140600-36150400	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr5:36140600-36150600	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr5:36140600-36150600	Weak transcription	Rectal Smooth Muscle	rectum
19	chr5:36140600-36150600	Weak transcription	Thymus	Thymus
20	chr5:36140600-36150800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr5:36140600-36150800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr5:36140600-36150800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr5:36140600-36150800	Weak transcription	Aorta	Aorta
24	chr5:36140600-36150800	Weak transcription	Brain Angular Gyrus	brain
25	chr5:36140600-36150800	Weak transcription	Gastric	stomach
26	chr5:36140600-36150800	Weak transcription	Small Intestine	intestine
27	chr5:36140600-36150800	Weak transcription	Spleen	Spleen
28	chr5:36140600-36151000	Weak transcription	Esophagus	oesophagus
29	chr5:36140600-36151000	Weak transcription	Left Ventricle	heart
30	chr5:36140600-36151000	Weak transcription	Pancreas	Pancrea
31	chr5:36140600-36151200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr5:36140600-36151200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr5:36140800-36150200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr5:36140800-36150400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr5:36140800-36150600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr5:36140800-36150600	Weak transcription	Brain Anterior Caudate	brain
37	chr5:36140800-36150600	Weak transcription	Brain Cingulate Gyrus	brain
38	chr5:36140800-36150600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr5:36140800-36150800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr5:36140800-36150800	Weak transcription	Fetal Lung	lung
41	chr5:36140800-36150800	Weak transcription	Fetal Stomach	stomach
42	chr5:36140800-36150800	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr5:36140800-36151000	Weak transcription	Lung	lung
44	chr5:36140800-36151000	Weak transcription	Sigmoid Colon	Sigmoid Colon
45	chr5:36141000-36149800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr5:36141000-36150200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
47	chr5:36141000-36150200	Weak transcription	Skeletal Muscle Male	skeletal muscle
48	chr5:36141000-36150400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr5:36141000-36150600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr5:36141000-36150600	Weak transcription	Rectal Mucosa Donor 29	rectum

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