Variant report

Variant	rs461873
Chromosome Location	chr5:95008959-95008960
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:95005377..95009942-chr5:95032567..95034719,5	MCF-7	breast:
2	chr5:94977116..95012475-chr5:95055682..95079552,215	K562	blood:
3	chr5:95005419..95015076-chr5:95065455..95072981,19	MCF-7	breast:
4	chr5:94980512..95018354-chr5:95057997..95080764,228	K562	blood:
5	chr5:95008668..95011656-chr5:95017119..95019172,2	MCF-7	breast:
6	chr5:95006472..95010092-chr5:95070112..95072894,3	MCF-7	breast:
7	chr5:95006484..95009767-chr5:95065115..95069672,5	MCF-7	breast:
8	chr5:95006572..95009487-chr5:95081876..95084806,3	K562	blood:
9	chr5:95007000..95009059-chr5:95032542..95035074,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000164292	Chromatin interaction
ENSG00000145757	Chromatin interaction
ENSG00000250240	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs12658215	0.82[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs150548	0.81[JPT][hapmap]
rs150549	0.81[JPT][hapmap]
rs150550	0.85[JPT][hapmap]
rs183327	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs185313	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs213510	0.81[JPT][hapmap]
rs213512	0.81[JPT][hapmap]
rs213880	0.90[JPT][hapmap]
rs2548121	0.85[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.89[TSI][hapmap];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2548122	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34901	0.85[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.89[TSI][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs40098	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs412026	0.81[JPT][hapmap]
rs460697	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs462319	0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs462944	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[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	nsv598955	chr5:94903453-95136019	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv830409	chr5:95006686-95204496	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs461873	GLRX	cis	parietal	SCAN

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:95005000-95010400	Enhancers	Placenta	Placenta
2	chr5:95005800-95009800	Weak transcription	Aorta	Aorta
3	chr5:95006000-95009800	Enhancers	HepG2	liver
4	chr5:95006000-95015000	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr5:95006600-95009000	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr5:95006600-95010000	Weak transcription	Psoas Muscle	Psoas
7	chr5:95006800-95009200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr5:95007600-95009200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr5:95007800-95009000	Enhancers	Hela-S3	cervix
10	chr5:95007800-95009200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr5:95007800-95009200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr5:95007800-95009200	Enhancers	Adipose Nuclei	Adipose
13	chr5:95007800-95009200	Enhancers	Liver	Liver
14	chr5:95007800-95009200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
15	chr5:95007800-95009200	Enhancers	K562	blood
16	chr5:95007800-95009400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr5:95008400-95009000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr5:95008400-95009200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr5:95008400-95009600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr5:95008400-95010000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr5:95008600-95009200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr5:95008800-95009000	Enhancers	Fetal Heart	heart
23	chr5:95008800-95009000	Enhancers	Osteobl	bone
24	chr5:95008800-95009200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr5:95008800-95009200	Enhancers	Fetal Brain Male	brain
26	chr5:95008800-95009200	Enhancers	Fetal Brain Female	brain
27	chr5:95008800-95009200	Enhancers	Fetal Muscle Leg	muscle
28	chr5:95008800-95009200	Enhancers	Ovary	ovary

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