Variant report

Variant	rs6887439
Chromosome Location	chr5:15930194-15930195
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10042283	0.86[EUR][1000 genomes]
rs10520829	0.85[EUR][1000 genomes]
rs10520830	0.88[EUR][1000 genomes]
rs10520831	0.88[EUR][1000 genomes]
rs12186586	0.88[EUR][1000 genomes]
rs12188160	0.88[EUR][1000 genomes]
rs12188594	0.88[EUR][1000 genomes]
rs12517809	0.89[EUR][1000 genomes]
rs12653963	0.88[EUR][1000 genomes]
rs13153362	0.88[EUR][1000 genomes]
rs13154254	0.85[EUR][1000 genomes]
rs13164363	0.89[EUR][1000 genomes]
rs13189148	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3935972	0.89[EUR][1000 genomes]
rs4410637	0.85[EUR][1000 genomes]
rs55742366	0.89[EUR][1000 genomes]
rs6874587	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6876718	0.88[EUR][1000 genomes]
rs6878591	0.87[EUR][1000 genomes]
rs6878775	0.87[EUR][1000 genomes]
rs6886664	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6888294	0.81[EUR][1000 genomes]
rs6892388	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880755	chr5:15670377-15938553	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
2	nsv461986	chr5:15854098-15943683	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
3	nsv597292	chr5:15854098-15943683	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
4	nsv830216	chr5:15860662-16060420	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region miRNA	4 gene(s)	inside rSNPs	diseases
5	nsv427712	chr5:15883439-16055856	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA	4 gene(s)	inside rSNPs	diseases
6	nsv4735	chr5:15916346-15961432	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:15913800-15936000	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr5:15914000-15940000	Weak transcription	Colon Smooth Muscle	Colon
3	chr5:15919600-15933600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr5:15920000-15933400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr5:15926000-15935600	Weak transcription	Stomach Smooth Muscle	stomach
6	chr5:15926600-15936600	Weak transcription	Rectal Smooth Muscle	rectum
7	chr5:15926800-15939000	Weak transcription	HSMM	muscle
8	chr5:15927000-15932200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr5:15927000-15933000	Weak transcription	Brain Substantia Nigra	brain
10	chr5:15927000-15933600	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr5:15927000-15937000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr5:15927000-15938800	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr5:15927200-15933000	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr5:15927200-15933400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr5:15927400-15933000	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr5:15927400-15933400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr5:15927400-15933600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr5:15927600-15930600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr5:15927600-15931600	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr5:15927600-15931600	Weak transcription	Brain Angular Gyrus	brain
21	chr5:15927600-15931600	Weak transcription	Brain Anterior Caudate	brain
22	chr5:15927600-15932200	Weak transcription	Brain Cingulate Gyrus	brain
23	chr5:15927600-15932400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr5:15927600-15933000	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr5:15927600-15936200	Weak transcription	Brain Hippocampus Middle	brain
26	chr5:15927600-15936800	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr5:15928000-15936400	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr5:15928200-15930200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr5:15928200-15931200	Enhancers	Fetal Brain Male	brain
30	chr5:15928200-15933800	Enhancers	Fetal Heart	heart
31	chr5:15928400-15936600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr5:15928600-15932600	Weak transcription	Dnd41	blood
33	chr5:15928600-15933600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr5:15928600-15935800	Weak transcription	Right Ventricle	heart
35	chr5:15928600-15936200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr5:15928600-15936600	Weak transcription	Esophagus	oesophagus
37	chr5:15928600-15936600	Weak transcription	Spleen	Spleen
38	chr5:15928600-15938400	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr5:15928800-15932800	Weak transcription	Cortex derived primary cultured neurospheres	brain
40	chr5:15928800-15935800	Weak transcription	Aorta	Aorta
41	chr5:15928800-15936400	Weak transcription	Fetal Intestine Large	intestine
42	chr5:15928800-15936400	Weak transcription	Lung	lung
43	chr5:15928800-15936600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr5:15928800-15951400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr5:15929000-15932400	Enhancers	Fetal Lung	lung
46	chr5:15929000-15933400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr5:15929000-15936400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr5:15929000-15936400	Weak transcription	Fetal Muscle Trunk	muscle
49	chr5:15929000-15936600	Weak transcription	Left Ventricle	heart
50	chr5:15929200-15930200	Enhancers	Fetal Brain Female	brain

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