Variant report

Variant	rs1036700
Chromosome Location	chr9:92685957-92685958
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:92206823..92209475-chr9:92684160..92686501,2	MCF-7	breast:
2	chr9:92218872..92221885-chr9:92684149..92688442,4	MCF-7	breast:
3	chr9:92217841..92222641-chr9:92679830..92688712,19	MCF-7	breast:
4	chr14:96564791..96565302-chr9:92685623..92686143,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000130222	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10117690	0.81[EUR][1000 genomes]
rs10761340	0.90[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs10821092	0.86[CHB][hapmap]
rs10992771	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10993647	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12235508	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12235763	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16905869	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28373405	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62556807	0.91[EUR][1000 genomes]
rs62556808	0.91[EUR][1000 genomes]
rs7021720	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.81[MKK][hapmap];0.96[TSI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7021867	0.86[CHB][hapmap];0.81[CHD][hapmap];0.85[JPT][hapmap];0.82[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	esv15329	chr9:92678855-92698160	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	esv3399737	chr9:92682932-92687130	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1036700	GAS1	cis	parietal	SCAN

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:92681600-92691600	Weak transcription	Right Atrium	heart
2	chr9:92681800-92686000	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr9:92681800-92686200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr9:92681800-92686200	Weak transcription	Fetal Intestine Large	intestine
5	chr9:92681800-92686200	Weak transcription	Fetal Intestine Small	intestine
6	chr9:92681800-92686200	Weak transcription	Placenta	Placenta
7	chr9:92681800-92686200	Weak transcription	Left Ventricle	heart
8	chr9:92681800-92689000	Weak transcription	Right Ventricle	heart
9	chr9:92682000-92689200	Weak transcription	Lung	lung
10	chr9:92683800-92689200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr9:92684400-92687400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr9:92684400-92687400	Enhancers	Placenta Amnion	Placenta Amnion
13	chr9:92685000-92687200	Enhancers	HepG2	liver
14	chr9:92685000-92690800	Enhancers	Liver	Liver
15	chr9:92685000-92691200	Weak transcription	Spleen	Spleen
16	chr9:92685200-92686200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr9:92685200-92686200	Weak transcription	Fetal Heart	heart
18	chr9:92685200-92686200	Weak transcription	Fetal Kidney	kidney
19	chr9:92685200-92686200	Weak transcription	Fetal Lung	lung
20	chr9:92685200-92686200	Weak transcription	Pancreas	Pancrea
21	chr9:92685200-92689200	Weak transcription	Gastric	stomach
22	chr9:92685400-92688600	Weak transcription	Fetal Brain Male	brain
23	chr9:92685600-92686000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr9:92685600-92686000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
25	chr9:92685600-92686200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr9:92685600-92686200	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
27	chr9:92685800-92687000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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