Variant report

Variant	rs7162113
Chromosome Location	chr15:77915227-77915228
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:77908642..77910166-chr15:77913466..77916078,2	MCF-7	breast:
2	chr15:77910678..77912184-chr15:77913729..77916491,2	K562	blood:
3	chr15:77899424..77903075-chr15:77914224..77917029,3	K562	blood:
4	chr15:77914149..77916308-chr15:77924706..77928393,3	MCF-7	breast:
5	chr15:77914562..77916092-chr15:77921484..77924358,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169783	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs1007537	0.86[JPT][hapmap]
rs1058129	1.00[JPT][hapmap]
rs7162494	0.95[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs907400	1.00[LWK][hapmap];0.83[MKK][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv916323	chr15:77485765-78121259	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv833060	chr15:77816654-78035204	Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	esv1806097	chr15:77817889-78301377	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
5	nsv904415	chr15:77845959-77943935	Weak transcription Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv904416	chr15:77845959-77967416	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv904417	chr15:77851535-77935992	Weak transcription Flanking Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv904418	chr15:77851535-77963887	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv904419	chr15:77897197-77943935	Bivalent Enhancer Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	esv3406226	chr15:77914297-77918495	Bivalent Enhancer Weak transcription Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7162113	SGK269	cis	parietal	SCAN
rs7162113	STRA6	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77904200-77915400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr15:77908000-77918800	Weak transcription	Brain Germinal Matrix	brain
3	chr15:77910400-77923400	Weak transcription	Pancreas	Pancrea
4	chr15:77910600-77916800	Weak transcription	Fetal Brain Female	brain
5	chr15:77911600-77916600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr15:77912200-77920200	Enhancers	Brain Angular Gyrus	brain
7	chr15:77912600-77916200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr15:77912600-77916600	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr15:77913600-77923000	Enhancers	H1 Cell Line	embryonic stem cell
10	chr15:77913800-77917200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
11	chr15:77913800-77918000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr15:77914000-77916200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr15:77914000-77916200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
14	chr15:77914000-77916600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr15:77914000-77916800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr15:77914000-77916800	Enhancers	Fetal Muscle Trunk	muscle
17	chr15:77914000-77917200	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr15:77914000-77917200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr15:77914000-77918000	Enhancers	Fetal Lung	lung
20	chr15:77914000-77918400	Enhancers	HUES64 Cell Line	embryonic stem cell
21	chr15:77914200-77916000	Enhancers	Fetal Muscle Leg	muscle
22	chr15:77914200-77916600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
23	chr15:77914200-77917800	Enhancers	Fetal Heart	heart
24	chr15:77914200-77918000	Enhancers	Brain Hippocampus Middle	brain
25	chr15:77914200-77918000	Enhancers	Fetal Stomach	stomach
26	chr15:77914200-77919000	Enhancers	Brain Inferior Temporal Lobe	brain
27	chr15:77914200-77920400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr15:77914400-77915400	Enhancers	Brain Substantia Nigra	brain
29	chr15:77914400-77915400	Flanking Bivalent TSS/Enh	HepG2	liver
30	chr15:77914400-77916800	Enhancers	Brain Anterior Caudate	brain
31	chr15:77914400-77917200	Enhancers	Spleen	Spleen
32	chr15:77914400-77917800	Enhancers	Brain Cingulate Gyrus	brain
33	chr15:77914400-77923200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
34	chr15:77914600-77916400	Flanking Active TSS	K562	blood
35	chr15:77914800-77915400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr15:77914800-77915400	Enhancers	HUES6 Cell Line	embryonic stem cell
37	chr15:77914800-77915400	Enhancers	Right Atrium	heart
38	chr15:77914800-77915600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr15:77914800-77915800	Enhancers	Fetal Intestine Small	intestine
40	chr15:77914800-77916600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
41	chr15:77914800-77916800	Enhancers	H9 Cell Line	embryonic stem cell
42	chr15:77914800-77921600	Enhancers	Fetal Brain Male	brain
43	chr15:77915000-77915400	Bivalent Enhancer	Placenta	Placenta
44	chr15:77915200-77915400	Bivalent Enhancer	Fetal Intestine Large	intestine
45	chr15:77915200-77915600	Enhancers	iPS-15b Cell Line	embryonic stem cell
46	chr15:77915200-77915800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr15:77915200-77916200	Weak transcription	Right Ventricle	heart
48	chr15:77915200-77916200	Enhancers	A549	lung
49	chr15:77915200-77916400	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr15:77915200-77916600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell

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