Variant report

Variant	rs3806873
Chromosome Location	chr5:5462607-5462608
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:5461166..5463763-chr5:5465036..5466745,3	K562	blood:
2	chr5:5447256..5448838-chr5:5461165..5463148,2	K562	blood:
3	chr5:5461351..5463473-chr5:5463699..5466479,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10462631	1.00[EUR][1000 genomes]
rs1473230	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs16875568	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs16875578	0.81[AFR][1000 genomes]
rs16875584	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs16875589	0.81[EUR][1000 genomes]
rs16875590	0.81[EUR][1000 genomes]
rs16875597	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs16875609	1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap]
rs16875617	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16875618	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16875619	1.00[CEU][hapmap];0.93[GIH][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs16900246	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs16900247	0.94[CHB][hapmap];0.94[JPT][hapmap];0.94[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2306349	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs35190184	0.95[EUR][1000 genomes]
rs3747730	0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.98[ASN][1000 genomes]
rs3806874	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4283757	1.00[CEU][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap];0.95[EUR][1000 genomes]
rs4701700	0.81[AFR][1000 genomes]
rs4702268	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[EUR][1000 genomes]
rs4702269	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs4702270	1.00[EUR][1000 genomes]
rs4702271	1.00[EUR][1000 genomes]
rs59189910	0.82[AMR][1000 genomes]
rs6874726	1.00[YRI][hapmap]
rs6874736	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[EUR][1000 genomes]
rs72646678	1.00[EUR][1000 genomes]
rs728079	0.86[EUR][1000 genomes]
rs73736664	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7713294	0.91[EUR][1000 genomes]
rs7713609	0.81[EUR][1000 genomes]
rs7714569	1.00[EUR][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	esv2757981	chr5:5447098-5764620	Enhancers Strong transcription Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	esv2759319	chr5:5447098-5764620	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA miRNA target site	6 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	chr5:5430200-5478800	Weak transcription	Stomach Mucosa	stomach
2	chr5:5433400-5495200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr5:5436600-5468400	Strong transcription	Primary T helper cells PMA-I stimulated	--
4	chr5:5436600-5470600	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr5:5436600-5471400	Strong transcription	Hela-S3	cervix
6	chr5:5436600-5478200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr5:5436800-5470400	Strong transcription	HUES64 Cell Line	embryonic stem cell
8	chr5:5436800-5470600	Strong transcription	Primary monocytes fromperipheralblood	blood
9	chr5:5437200-5470600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr5:5437200-5477000	Strong transcription	Primary T helper cells fromperipheralblood	blood
11	chr5:5437400-5470800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
12	chr5:5437400-5480000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr5:5437600-5470600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr5:5437800-5470600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
15	chr5:5439600-5470600	Strong transcription	Dnd41	blood
16	chr5:5440000-5470600	Strong transcription	Primary T cells fromperipheralblood	blood
17	chr5:5440800-5471600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr5:5441200-5468800	Strong transcription	Liver	Liver
19	chr5:5441400-5468400	Strong transcription	HUES6 Cell Line	embryonic stem cell
20	chr5:5441400-5468800	Strong transcription	Adipose Nuclei	Adipose
21	chr5:5441400-5469000	Strong transcription	Skeletal Muscle Female	skeletal muscle
22	chr5:5441400-5470400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr5:5441600-5465200	Strong transcription	Rectal Mucosa Donor 31	rectum
24	chr5:5441600-5468800	Strong transcription	HUES48 Cell Line	embryonic stem cell
25	chr5:5441600-5469000	Strong transcription	Duodenum Mucosa	Duodenum
26	chr5:5441600-5470600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr5:5442400-5475800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
28	chr5:5446800-5467000	Strong transcription	NH-A	brain
29	chr5:5448800-5470400	Strong transcription	Primary B cells from cord blood	blood
30	chr5:5451800-5467400	Strong transcription	Stomach Smooth Muscle	stomach
31	chr5:5452600-5468400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr5:5452600-5472000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr5:5452800-5464000	Strong transcription	HUVEC	blood vessel
34	chr5:5453000-5464800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr5:5453000-5467600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr5:5453000-5467600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr5:5453200-5463200	Strong transcription	Colon Smooth Muscle	Colon
38	chr5:5453200-5465200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr5:5453200-5468400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr5:5453200-5468400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr5:5453200-5468400	Strong transcription	Fetal Muscle Leg	muscle
42	chr5:5453200-5470400	Strong transcription	Fetal Muscle Trunk	muscle
43	chr5:5453400-5462800	Strong transcription	K562	blood
44	chr5:5453400-5463400	Strong transcription	Brain Inferior Temporal Lobe	brain
45	chr5:5453400-5468400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
46	chr5:5453400-5469200	Strong transcription	Duodenum Smooth Muscle	Duodenum
47	chr5:5453800-5470600	Strong transcription	Primary T cells from cord blood	blood
48	chr5:5454000-5463800	Strong transcription	Muscle Satellite Cultured Cells	--
49	chr5:5454000-5465200	Strong transcription	Primary neutrophils fromperipheralblood	blood
50	chr5:5454000-5465200	Strong transcription	HSMMtube	muscle

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