Variant report

Variant	rs16977584
Chromosome Location	chr15:57831362-57831363
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs1280393	1.00[AMR][1000 genomes]
rs1280394	1.00[AMR][1000 genomes]
rs1290244	1.00[EUR][1000 genomes]
rs1540397	1.00[EUR][1000 genomes]
rs16953334	1.00[EUR][1000 genomes]
rs16977546	1.00[EUR][1000 genomes]
rs16977553	1.00[EUR][1000 genomes]
rs16977555	1.00[EUR][1000 genomes]
rs16977563	1.00[EUR][1000 genomes]
rs16977581	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977583	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977600	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1834487	1.00[EUR][1000 genomes]
rs1946357	1.00[EUR][1000 genomes]
rs2098891	1.00[EUR][1000 genomes]
rs2554031	1.00[EUR][1000 genomes]
rs2733610	1.00[EUR][1000 genomes]
rs2733611	1.00[EUR][1000 genomes]
rs2733612	1.00[EUR][1000 genomes]
rs28540249	1.00[EUR][1000 genomes]
rs28547400	1.00[EUR][1000 genomes]
rs28707698	1.00[EUR][1000 genomes]
rs55782827	1.00[EUR][1000 genomes]
rs56091272	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56179101	1.00[EUR][1000 genomes]
rs56810932	1.00[EUR][1000 genomes]
rs58764014	1.00[EUR][1000 genomes]
rs60234362	1.00[EUR][1000 genomes]
rs60767381	1.00[EUR][1000 genomes]
rs60973024	1.00[EUR][1000 genomes]
rs6493944	1.00[EUR][1000 genomes]
rs7167118	1.00[EUR][1000 genomes]
rs7168720	1.00[AMR][1000 genomes]
rs7174185	1.00[EUR][1000 genomes]
rs7174233	1.00[EUR][1000 genomes]
rs7174359	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7181645	1.00[EUR][1000 genomes]
rs73421833	1.00[EUR][1000 genomes]
rs73421838	1.00[EUR][1000 genomes]
rs73421863	1.00[EUR][1000 genomes]
rs73421865	1.00[EUR][1000 genomes]
rs73421901	1.00[EUR][1000 genomes]
rs73423507	1.00[EUR][1000 genomes]
rs73423512	1.00[EUR][1000 genomes]
rs73423518	1.00[EUR][1000 genomes]
rs73423522	1.00[EUR][1000 genomes]
rs73423541	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73423555	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73423558	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73423560	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73423562	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73423566	1.00[EUR][1000 genomes]
rs73423591	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74016229	1.00[EUR][1000 genomes]
rs74016236	1.00[EUR][1000 genomes]
rs74018224	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs933839	1.00[EUR][1000 genomes]

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	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv1054547	chr15:57600488-57977659	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv904255	chr15:57790436-57907574	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57802600-57846600	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr15:57803200-57842800	Weak transcription	Aorta	Aorta
3	chr15:57819200-57841000	Weak transcription	Esophagus	oesophagus
4	chr15:57819800-57833000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr15:57819800-57840000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr15:57820600-57834000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr15:57821800-57842800	Strong transcription	Liver	Liver
8	chr15:57822800-57833000	Weak transcription	HepG2	liver
9	chr15:57822800-57834000	Weak transcription	Colon Smooth Muscle	Colon
10	chr15:57825000-57835800	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr15:57826000-57834200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr15:57827200-57832200	Strong transcription	HUES48 Cell Line	embryonic stem cell
13	chr15:57827400-57832000	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr15:57827400-57834200	Weak transcription	Lung	lung
15	chr15:57827600-57840600	Weak transcription	Fetal Lung	lung
16	chr15:57828000-57833400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr15:57828200-57831800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr15:57828600-57832400	Enhancers	Fetal Kidney	kidney
19	chr15:57829000-57832000	Enhancers	Fetal Muscle Leg	muscle
20	chr15:57829400-57832600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr15:57829400-57835800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr15:57829400-57841200	Weak transcription	Left Ventricle	heart
23	chr15:57829400-57842600	Weak transcription	Brain Hippocampus Middle	brain
24	chr15:57829600-57831400	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr15:57829600-57831400	Weak transcription	Gastric	stomach
26	chr15:57829600-57832200	Enhancers	Fetal Muscle Trunk	muscle
27	chr15:57829600-57834600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr15:57829600-57834600	Weak transcription	Right Ventricle	heart
29	chr15:57829600-57835800	Weak transcription	Ovary	ovary
30	chr15:57829600-57842000	Weak transcription	Brain Cingulate Gyrus	brain
31	chr15:57829600-57843200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr15:57829800-57833200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr15:57830000-57831400	Enhancers	Placenta Amnion	Placenta Amnion
34	chr15:57830000-57832400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr15:57830000-57833000	Weak transcription	Placenta	Placenta
36	chr15:57830000-57833000	Weak transcription	Pancreas	Pancrea
37	chr15:57830000-57834200	Weak transcription	Stomach Mucosa	stomach
38	chr15:57830000-57840800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr15:57830000-57846400	Weak transcription	Brain Substantia Nigra	brain
40	chr15:57830200-57842200	Strong transcription	Fetal Stomach	stomach
41	chr15:57830400-57831800	Weak transcription	HSMMtube	muscle
42	chr15:57830400-57843400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr15:57830600-57834400	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr15:57830600-57835400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr15:57830600-57842200	Weak transcription	Brain Anterior Caudate	brain
46	chr15:57830800-57831600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr15:57830800-57831800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr15:57830800-57831800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr15:57830800-57832600	Weak transcription	Fetal Intestine Small	intestine
50	chr15:57830800-57842400	Weak transcription	HUVEC	blood vessel

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