Variant report

Variant	rs12405782
Chromosome Location	chr1:160959461-160959462
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:160952049..160953710-chr1:160957202..160960136,2	K562	blood:
2	chr1:160959131..160961760-chr1:160965672..160967249,2	K562	blood:
3	chr1:160804510..160805361-chr1:160959406..160960281,2	MCF-7	breast:
4	chr1:160957625..160960589-chr1:160987961..160989680,2	K562	blood:

Extended variants
information (count: 53 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs1044478	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1062826	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1062827	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11265540	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11265542	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11799478	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11799521	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11801586	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11805856	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11807930	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12401336	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12408778	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12565932	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17388108	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1806774	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2243427	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2247459	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2247596	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2247671	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2247790	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2251597	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2251728	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2297219	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2297220	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2297221	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2297222	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2481080	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2481081	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2481083	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2481084	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2481085	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2483145	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2774274	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2988726	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3119321	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3737785	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs41267947	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs41267949	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs41267951	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs41269993	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4339888	0.82[AMR][1000 genomes]
rs61802231	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61803664	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61803665	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61803671	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61803672	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72712854	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs812741	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs836	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs869985	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530077	chr1:160836448-161284904	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
2	nsv548058	chr1:160925455-160989614	Flanking Active TSS Genic enhancers Active TSS Enhancers Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	esv10894	chr1:160953742-160960609	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12405782	F11R	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160943200-160959800	Weak transcription	Pancreas	Pancrea
2	chr1:160948600-160968000	Weak transcription	Ovary	ovary
3	chr1:160952200-160964400	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr1:160952200-160967000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr1:160953200-160966600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr1:160953800-160968200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr1:160954200-160959800	Weak transcription	Primary neutrophils fromperipheralblood	blood
8	chr1:160955800-160964400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr1:160957200-160966800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr1:160957400-160967000	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr1:160957600-160960400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr1:160957800-160968000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr1:160958200-160966600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr1:160958600-160959800	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr1:160958600-160959800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr1:160958600-160960200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr1:160958600-160960200	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr1:160958600-160960200	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr1:160958600-160960200	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr1:160958600-160960200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr1:160958600-160960200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr1:160958800-160960200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr1:160959000-160959800	Weak transcription	Primary B cells from cord blood	blood

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