Variant report

Variant	rs17826358
Chromosome Location	chr3:160498211-160498212
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs1159747	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.92[TSI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1357255	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1378662	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.92[TSI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1378663	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1455870	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[TSI][hapmap];0.88[EUR][1000 genomes]
rs1455871	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[TSI][hapmap];0.88[EUR][1000 genomes]
rs16831442	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs16831457	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs16831471	0.94[EUR][1000 genomes]
rs16831473	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs16831516	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[TSI][hapmap];0.88[EUR][1000 genomes]
rs16831520	1.00[CEU][hapmap];1.00[TSI][hapmap];0.88[EUR][1000 genomes]
rs17236613	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17236620	1.00[EUR][1000 genomes]
rs17236641	0.97[EUR][1000 genomes]
rs17236648	0.94[EUR][1000 genomes]
rs17236655	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17236662	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[TSI][hapmap];0.88[EUR][1000 genomes]
rs17826352	1.00[EUR][1000 genomes]
rs17826364	0.94[EUR][1000 genomes]
rs17826370	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs17826376	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs17826418	1.00[ASW][hapmap]
rs2068817	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[TSI][hapmap];0.88[EUR][1000 genomes]
rs34035435	0.91[EUR][1000 genomes]
rs3907061	0.88[EUR][1000 genomes]
rs4549318	0.91[EUR][1000 genomes]
rs4627794	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs55891037	0.94[EUR][1000 genomes]
rs55905728	0.94[EUR][1000 genomes]
rs55923270	0.88[EUR][1000 genomes]
rs55997050	0.94[EUR][1000 genomes]
rs56083575	0.94[EUR][1000 genomes]
rs56141155	0.94[EUR][1000 genomes]
rs56157815	0.94[EUR][1000 genomes]
rs56180903	0.94[EUR][1000 genomes]
rs56305441	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56331465	0.94[EUR][1000 genomes]
rs57828617	0.88[EUR][1000 genomes]
rs58891820	0.94[EUR][1000 genomes]
rs6768524	1.00[CEU][hapmap]
rs6771910	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs6779461	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs73877952	0.94[EUR][1000 genomes]
rs73877966	0.94[EUR][1000 genomes]
rs7618082	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs7618596	0.94[EUR][1000 genomes]
rs7629154	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs7633401	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9837945	0.87[CEU][hapmap];0.87[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv1009249	chr3:160496237-160627378	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv536780	chr3:160496237-160627378	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160487200-160502200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr3:160492400-160498800	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr3:160495000-160502600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr3:160496200-160498600	Enhancers	Brain Cingulate Gyrus	brain
5	chr3:160496200-160501000	Enhancers	Colon Smooth Muscle	Colon
6	chr3:160496400-160498400	Weak transcription	Fetal Brain Female	brain
7	chr3:160496400-160499400	Enhancers	Duodenum Smooth Muscle	Duodenum
8	chr3:160496400-160499600	Enhancers	Psoas Muscle	Psoas
9	chr3:160496400-160499600	Enhancers	Stomach Smooth Muscle	stomach
10	chr3:160496600-160499400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr3:160496600-160503400	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr3:160496800-160501600	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr3:160497000-160498600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr3:160497000-160499600	Enhancers	Primary monocytes fromperipheralblood	blood
15	chr3:160497200-160498400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr3:160497200-160499600	Enhancers	Monocytes-CD14+_RO01746	blood
17	chr3:160497200-160502000	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr3:160497800-160498600	Enhancers	Primary hematopoietic stem cells	blood
19	chr3:160497800-160498600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr3:160497800-160498600	Enhancers	Brain Angular Gyrus	brain
21	chr3:160497800-160499000	Enhancers	Primary hematopoietic stem cells short term culture	blood
22	chr3:160498000-160498400	Enhancers	Fetal Heart	heart
23	chr3:160498000-160499200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr3:160498000-160499400	Weak transcription	Left Ventricle	heart
25	chr3:160498200-160498400	Enhancers	Primary T cells from cord blood	blood
26	chr3:160498200-160498400	Enhancers	Right Ventricle	heart
27	chr3:160498200-160498600	Enhancers	Brain Hippocampus Middle	brain
28	chr3:160498200-160498600	Enhancers	Brain Inferior Temporal Lobe	brain
29	chr3:160498200-160498600	Enhancers	Brain Substantia Nigra	brain
30	chr3:160498200-160498600	Enhancers	Skeletal Muscle Female	skeletal muscle
31	chr3:160498200-160498600	Enhancers	Stomach Mucosa	stomach
32	chr3:160498200-160498800	Enhancers	Brain Anterior Caudate	brain
33	chr3:160498200-160498800	Enhancers	Skeletal Muscle Male	skeletal muscle
34	chr3:160498200-160499800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr3:160498200-160500400	Enhancers	Rectal Smooth Muscle	rectum

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