Variant report

Variant	rs62016857
Chromosome Location	chr15:73469918-73469919
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs1116880	0.84[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs11634084	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12050658	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12050685	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12050774	0.88[EUR][1000 genomes]
rs1479338	0.88[EUR][1000 genomes]
rs1479339	0.88[EUR][1000 genomes]
rs17762146	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17762516	0.85[EUR][1000 genomes]
rs17762600	0.88[EUR][1000 genomes]
rs17829830	0.88[EUR][1000 genomes]
rs17829957	0.87[EUR][1000 genomes]
rs1812835	0.87[EUR][1000 genomes]
rs1964543	0.82[EUR][1000 genomes]
rs2415148	0.84[EUR][1000 genomes]
rs3985588	0.93[EUR][1000 genomes]
rs55646651	0.88[EUR][1000 genomes]
rs55868723	0.90[EUR][1000 genomes]
rs55916847	0.82[AFR][1000 genomes]
rs55939596	0.87[EUR][1000 genomes]
rs56118677	0.91[AFR][1000 genomes]
rs56215298	0.87[EUR][1000 genomes]
rs56348595	0.87[EUR][1000 genomes]
rs59066156	0.96[EUR][1000 genomes]
rs62015460	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62015484	0.98[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62015499	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62015500	0.83[EUR][1000 genomes]
rs62015502	0.82[EUR][1000 genomes]
rs62015504	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62016793	0.91[AFR][1000 genomes]
rs62016808	0.82[EUR][1000 genomes]
rs62016813	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62016850	0.81[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs62016851	0.80[EUR][1000 genomes]
rs62016853	0.88[EUR][1000 genomes]
rs62016854	0.87[EUR][1000 genomes]
rs62016856	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62016858	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62017774	0.87[EUR][1000 genomes]
rs62017776	0.87[EUR][1000 genomes]
rs7169083	0.85[EUR][1000 genomes]
rs74022925	0.87[EUR][1000 genomes]
rs74025262	0.88[EUR][1000 genomes]
rs7497992	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9806496	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904338	chr15:73313691-73483718	Enhancers Active TSS Strong transcription ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv517966	chr15:73349633-73488753	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv525462	chr15:73349633-73563495	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv904339	chr15:73375847-73483718	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv904340	chr15:73375847-73524629	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv904341	chr15:73390790-73483718	ZNF genes & repeats Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv904342	chr15:73390790-73524629	Enhancers ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv904343	chr15:73396760-73775043	Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73401400-73480200	Weak transcription	Right Ventricle	heart
2	chr15:73447200-73470000	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr15:73450000-73475400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr15:73450000-73477400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr15:73452200-73470000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr15:73454600-73483000	Weak transcription	Colon Smooth Muscle	Colon
7	chr15:73454800-73471600	Weak transcription	Stomach Smooth Muscle	stomach
8	chr15:73455000-73473800	Weak transcription	Fetal Stomach	stomach
9	chr15:73455200-73500400	Weak transcription	Rectal Smooth Muscle	rectum
10	chr15:73457600-73470600	Weak transcription	Duodenum Mucosa	Duodenum
11	chr15:73458600-73473200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr15:73458600-73478000	Weak transcription	Colonic Mucosa	Colon
13	chr15:73459000-73470000	Weak transcription	Liver	Liver
14	chr15:73459000-73470400	Weak transcription	Fetal Lung	lung
15	chr15:73459000-73470600	Weak transcription	Fetal Kidney	kidney
16	chr15:73459000-73472400	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr15:73459000-73482800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr15:73459200-73471600	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr15:73459200-73473800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr15:73459200-73473800	Weak transcription	Fetal Intestine Small	intestine
21	chr15:73459400-73473400	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr15:73460800-73472400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
23	chr15:73462400-73473800	Weak transcription	Fetal Brain Female	brain
24	chr15:73466200-73473800	Weak transcription	Esophagus	oesophagus
25	chr15:73466800-73470600	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr15:73466800-73471600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr15:73466800-73471800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr15:73466800-73473800	Weak transcription	Fetal Muscle Leg	muscle
29	chr15:73466800-73482000	Weak transcription	Psoas Muscle	Psoas
30	chr15:73467000-73473800	Weak transcription	H9 Cell Line	embryonic stem cell
31	chr15:73467000-73473800	Weak transcription	Aorta	Aorta
32	chr15:73467000-73473800	Weak transcription	Gastric	stomach
33	chr15:73467200-73473800	Weak transcription	Pancreas	Pancrea
34	chr15:73467400-73473600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr15:73467600-73473200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr15:73467600-73473800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr15:73467800-73475200	Strong transcription	Rectal Mucosa Donor 31	rectum
38	chr15:73467800-73476800	Weak transcription	Fetal Brain Male	brain
39	chr15:73468000-73470000	Weak transcription	Brain Angular Gyrus	brain
40	chr15:73468000-73475400	Weak transcription	Brain Cingulate Gyrus	brain
41	chr15:73468200-73472600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
42	chr15:73468200-73473600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr15:73468200-73473800	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr15:73468200-73475000	Weak transcription	Brain Substantia Nigra	brain
45	chr15:73468400-73475000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
46	chr15:73468400-73475600	Weak transcription	Brain Hippocampus Middle	brain
47	chr15:73468600-73471400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr15:73468600-73476200	Weak transcription	Small Intestine	intestine
49	chr15:73468600-73481200	Weak transcription	Lung	lung
50	chr15:73468800-73472000	Strong transcription	iPS-20b Cell Line	embryonic stem cell

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