Variant report

Variant	rs1777025
Chromosome Location	chr9:93104061-93104062
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:93102527..93105084-chr9:93106529..93108300,2	K562	blood:
2	chr9:93103277..93106203-chr9:93118468..93120864,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1329090	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1343100	0.81[ASN][1000 genomes]
rs1627667	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1630044	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1648473	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1648475	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1648476	0.81[ASN][1000 genomes]
rs1754054	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1754055	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1754056	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1754059	0.81[ASN][1000 genomes]
rs1776994	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1776995	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1777013	0.81[ASN][1000 genomes]
rs1983962	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2555061	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2555065	0.83[ASN][1000 genomes]
rs2555066	0.83[ASN][1000 genomes]
rs2555067	0.81[ASN][1000 genomes]
rs2555068	0.81[ASN][1000 genomes]
rs2771077	0.83[ASN][1000 genomes]
rs2798043	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2798049	0.82[ASN][1000 genomes]
rs2798050	0.81[ASN][1000 genomes]
rs7862861	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051180	chr9:92869383-93141038	Weak transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv540169	chr9:92869383-93141038	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1041278	chr9:92965701-93560454	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised 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	16 gene(s)	inside rSNPs	diseases
4	nsv893564	chr9:93074228-93116944	Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1777025	RP11-389K14.3	cis	lung	GTEx

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:93103000-93104200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr9:93103000-93105600	Weak transcription	HSMMtube	muscle
3	chr9:93103000-93105800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr9:93103000-93107600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr9:93103000-93111400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr9:93103200-93105600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr9:93103200-93105600	Weak transcription	HMEC	breast
8	chr9:93103200-93105600	Weak transcription	NHEK	skin
9	chr9:93103200-93105800	Weak transcription	HSMM	muscle
10	chr9:93103200-93106200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr9:93103200-93106200	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr9:93103600-93106200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr9:93103800-93105800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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