Variant report

Variant	rs7163480
Chromosome Location	chr15:78887171-78887172
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10519205	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1472739	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16969920	1.00[GIH][hapmap]
rs16969948	1.00[ASW][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.87[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16969949	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1875869	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1875870	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1878398	0.94[AFR][1000 genomes]
rs3743060	1.00[GIH][hapmap]
rs59180001	0.89[AFR][1000 genomes]
rs71581741	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7165657	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs7166003	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs7174019	0.97[AFR][1000 genomes]
rs7178897	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7183983	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs73463074	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73463077	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73463078	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73463082	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73463090	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs73463095	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73465024	0.91[AFR][1000 genomes]
rs8029939	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs8043214	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917303	chr15:78491050-79205255	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	122 gene(s)	inside rSNPs	diseases
2	nsv518840	chr15:78871288-78887171	Weak transcription Active TSS ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:78868000-78895800	Weak transcription	GM12878-XiMat	blood
2	chr15:78877800-78890400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr15:78880200-78893400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr15:78880200-78893800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr15:78880200-78897400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr15:78881600-78893200	Weak transcription	Stomach Smooth Muscle	stomach
7	chr15:78883000-78891000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr15:78883000-78896000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr15:78883000-78896600	Weak transcription	A549	lung
10	chr15:78883200-78887400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr15:78883200-78888800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr15:78883200-78889200	Weak transcription	Hela-S3	cervix
13	chr15:78883200-78893600	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr15:78883400-78891400	Weak transcription	Fetal Stomach	stomach
15	chr15:78883400-78897800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr15:78883600-78893800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr15:78883800-78895000	Weak transcription	Fetal Intestine Small	intestine
18	chr15:78884200-78893200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr15:78884400-78901000	Strong transcription	Thymus	Thymus
20	chr15:78884600-78888400	Strong transcription	HUES64 Cell Line	embryonic stem cell
21	chr15:78884600-78895600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr15:78884600-78898600	Strong transcription	Fetal Thymus	thymus
23	chr15:78885200-78887400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr15:78885400-78888200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
25	chr15:78885400-78889000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr15:78885600-78888200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
27	chr15:78886200-78896400	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr15:78886400-78893800	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr15:78886800-78894000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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