Variant report

Variant	rs17398740
Chromosome Location	chr3:139741857-139741858
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	chr3:139741182..139743256-chr3:139752088..139754164,2	K562	blood:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1025175	0.83[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13067861	0.81[CEU][hapmap]
rs13098635	1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs13315308	1.00[JPT][hapmap];0.92[AMR][1000 genomes]
rs13322299	0.83[CEU][hapmap];1.00[JPT][hapmap]
rs1365152	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17398553	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2114167	0.81[CEU][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2162212	0.83[CEU][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2350274	0.81[CEU][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes]
rs35229182	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6439892	0.83[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs67276954	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs71314533	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7433787	0.88[ASN][1000 genomes]
rs7433809	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7615793	0.81[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9289595	0.81[CEU][hapmap];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9813297	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9818578	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9820731	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs9824570	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9827738	0.83[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9833263	0.81[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9845143	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9851415	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9863333	0.91[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9874196	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs9878201	1.00[JPT][hapmap];0.88[ASN][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	nsv1003154	chr3:139060841-139788752	ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv536729	chr3:139060841-139788752	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv916193	chr3:139187767-139821526	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv530058	chr3:139243971-139814419	Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv998423	chr3:139526446-139947336	Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv829738	chr3:139670836-139851945	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv877545	chr3:139738645-139821310	Weak transcription Enhancers Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:139732400-139742600	Weak transcription	HSMMtube	muscle
2	chr3:139738600-139743600	Enhancers	Brain Hippocampus Middle	brain
3	chr3:139738800-139742000	Weak transcription	Aorta	Aorta
4	chr3:139738800-139743200	Enhancers	Brain Substantia Nigra	brain
5	chr3:139739200-139743600	Enhancers	Brain Inferior Temporal Lobe	brain
6	chr3:139739600-139754400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr3:139739800-139743600	Enhancers	Brain Cingulate Gyrus	brain
8	chr3:139739800-139743600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
9	chr3:139740000-139743400	Enhancers	Stomach Smooth Muscle	stomach
10	chr3:139740200-139743600	Enhancers	Brain Angular Gyrus	brain
11	chr3:139740400-139743400	Enhancers	Brain Anterior Caudate	brain
12	chr3:139740600-139743600	Enhancers	Colon Smooth Muscle	Colon
13	chr3:139740800-139743000	Enhancers	Fetal Brain Male	brain
14	chr3:139740800-139743600	Enhancers	Skeletal Muscle Female	skeletal muscle
15	chr3:139740800-139744800	Enhancers	Ovary	ovary
16	chr3:139741000-139742800	Enhancers	Cortex derived primary cultured neurospheres	brain
17	chr3:139741000-139743200	Enhancers	Rectal Smooth Muscle	rectum
18	chr3:139741000-139743200	Enhancers	Skeletal Muscle Male	skeletal muscle
19	chr3:139741000-139743400	Enhancers	Adipose Nuclei	Adipose
20	chr3:139741200-139742200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr3:139741200-139742600	Enhancers	Right Ventricle	heart
22	chr3:139741200-139742800	Enhancers	Esophagus	oesophagus
23	chr3:139741200-139743200	Enhancers	Brain Germinal Matrix	brain
24	chr3:139741200-139743200	Enhancers	Fetal Brain Female	brain
25	chr3:139741200-139743400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr3:139741200-139743400	Enhancers	Fetal Muscle Leg	muscle
27	chr3:139741400-139742400	Weak transcription	Left Ventricle	heart
28	chr3:139741600-139742000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr3:139741600-139742800	Enhancers	Psoas Muscle	Psoas
30	chr3:139741800-139742000	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr3:139741800-139742800	Active TSS	Spleen	Spleen
32	chr3:139741800-139747000	Weak transcription	Right Atrium	heart

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