Variant report

Variant	rs34622
Chromosome Location	chr5:60462490-60462491
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:60454421..60471345-chr5:60622342..60633215,36	MCF-7	breast:
2	chr5:60457686..60461710-chr5:60461785..60466060,5	MCF-7	breast:
3	chr5:60454193..60465680-chr5:60622262..60629761,38	MCF-7	breast:
4	chr5:60458273..60459940-chr5:60462177..60464724,2	MCF-7	breast:
5	chr5:60461979..60463969-chr5:60549446..60551253,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000188725	Chromatin interaction
ENSG00000251279	Chromatin interaction
ENSG00000130449	Chromatin interaction

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

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

rs_ID	r²[population]
rs10071281	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12153228	1.00[ASN][1000 genomes]
rs124899	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12516321	1.00[ASN][1000 genomes]
rs12519764	1.00[ASN][1000 genomes]
rs12519810	1.00[ASN][1000 genomes]
rs12520484	1.00[ASN][1000 genomes]
rs12521434	1.00[ASN][1000 genomes]
rs1316649	1.00[ASN][1000 genomes]
rs13184350	1.00[ASN][1000 genomes]
rs13187930	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs158701	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs158702	1.00[ASN][1000 genomes]
rs159359	1.00[ASN][1000 genomes]
rs159361	1.00[ASN][1000 genomes]
rs159366	1.00[ASN][1000 genomes]
rs159368	1.00[ASN][1000 genomes]
rs159372	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2059064	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2080870	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs248686	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs256373	1.00[ASN][1000 genomes]
rs28634357	1.00[ASN][1000 genomes]
rs295571	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34089429	1.00[ASN][1000 genomes]
rs34155831	1.00[ASN][1000 genomes]
rs34279961	1.00[ASN][1000 genomes]
rs34596	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34611	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34628	1.00[ASN][1000 genomes]
rs34630	1.00[ASN][1000 genomes]
rs34632	1.00[ASN][1000 genomes]
rs34633	1.00[ASN][1000 genomes]
rs34676209	1.00[ASN][1000 genomes]
rs34784445	1.00[ASN][1000 genomes]
rs35078341	1.00[ASN][1000 genomes]
rs35957723	1.00[ASN][1000 genomes]
rs4647028	1.00[ASN][1000 genomes]
rs4647066	1.00[ASN][1000 genomes]
rs62365459	1.00[ASN][1000 genomes]
rs62367880	1.00[ASN][1000 genomes]
rs62367886	1.00[ASN][1000 genomes]
rs62367887	1.00[ASN][1000 genomes]
rs62370483	1.00[ASN][1000 genomes]
rs62372142	1.00[ASN][1000 genomes]
rs6893752	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71630091	1.00[ASN][1000 genomes]
rs7446842	1.00[ASN][1000 genomes]
rs9291706	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9763225	1.00[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	nsv949662	chr5:60047974-60488379	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv1034038	chr5:60375328-60607654	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
3	nsv1028884	chr5:60414723-60732779	Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs34622	ERCC8	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:60459400-60463400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr5:60459400-60463400	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr5:60459600-60463400	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr5:60459600-60463400	Weak transcription	HUVEC	blood vessel
5	chr5:60459600-60464600	Weak transcription	Stomach Mucosa	stomach
6	chr5:60459800-60463400	Weak transcription	Brain Cingulate Gyrus	brain
7	chr5:60459800-60463400	Weak transcription	Osteobl	bone
8	chr5:60460000-60469000	Weak transcription	Fetal Muscle Trunk	muscle
9	chr5:60460000-60473000	Weak transcription	HSMM	muscle
10	chr5:60460200-60463400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr5:60460200-60463400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr5:60460400-60464400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr5:60460400-60467200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr5:60460400-60470400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr5:60460400-60475000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr5:60461400-60463400	Weak transcription	Left Ventricle	heart
17	chr5:60461400-60465000	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr5:60461600-60464800	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr5:60461600-60464800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr5:60461800-60464600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr5:60461800-60464800	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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