Variant report

Variant	rs6677526
Chromosome Location	chr1:160954837-160954838
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10908820	0.84[ASN][1000 genomes]
rs12132502	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2039223	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2245672	0.86[AMR][1000 genomes]
rs2246145	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2246484	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2246485	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2247472	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2249409	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2249933	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2250174	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2250193	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2250304	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2265239	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2265240	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2265242	0.84[AMR][1000 genomes]
rs2481073	0.85[AMR][1000 genomes]
rs2481076	0.88[ASN][1000 genomes]
rs2481077	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2483140	0.88[AMR][1000 genomes]
rs2483142	0.84[EUR][1000 genomes]
rs2779801	0.88[AMR][1000 genomes]
rs2990694	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2990706	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3007155	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6427563	0.88[AMR][1000 genomes]
rs6427571	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6677533	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6698125	0.81[AMR][1000 genomes]
rs7542911	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs790055	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs790056	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 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	esv3330614	chr1:160953378-160955501	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv10894	chr1:160953742-160960609	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv3338772	chr1:160953878-160955226	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
6	esv3509633	chr1:160954381-160957557	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
7	esv2541280	chr1:160954683-160956285	ZNF genes & repeats Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
8	esv3452539	chr1:160954722-160955353	Weak transcription	n/a	n/a	inside rSNPs	diseases
9	esv3357320	chr1:160954751-160955313	Weak transcription	n/a	n/a	inside rSNPs	diseases
10	esv3402461	chr1:160954783-160955202	Weak transcription	n/a	n/a	inside rSNPs	diseases
11	esv3509632	chr1:160954790-160955317	Weak transcription	n/a	n/a	inside rSNPs	diseases
12	esv3509634	chr1:160954790-160955317	Weak transcription	n/a	n/a	inside rSNPs	diseases
13	esv3452538	chr1:160954838-160955215	Weak transcription	n/a	n/a	inside rSNPs	diseases
14	esv3452540	chr1:160954838-160955215	Weak transcription	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6677526	TSTD1	cis	Adipose Subcutaneous	GTEx
rs6677526	TSTD1	cis	Nerve Tibial	GTEx
rs6677526	F11R	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:15 , 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	chr1:160952200-160956400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr1:160952200-160964400	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr1:160952200-160967000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr1:160952400-160956400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr1:160952400-160957200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr1:160953200-160966600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr1:160953600-160955600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr1:160953600-160955800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr1:160953600-160956200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr1:160953800-160968200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr1:160954000-160956000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr1:160954000-160956600	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr1:160954200-160959800	Weak transcription	Primary neutrophils fromperipheralblood	blood

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