Variant report

Variant	rs4958460
Chromosome Location	chr5:150954648-150954649
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1368369	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1368370	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1432864	0.80[ASN][1000 genomes]
rs1465690	0.94[CHB][hapmap];0.86[CHD][hapmap];0.81[TSI][hapmap]
rs1469680	0.81[AMR][1000 genomes]
rs1897564	0.84[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1966639	0.90[ASN][1000 genomes]
rs2278370	0.94[CHB][hapmap]
rs2278371	0.89[CHB][hapmap]
rs2881557	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3097778	0.94[CHB][hapmap];0.86[CHD][hapmap];0.81[TSI][hapmap];0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs3097827	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7723204	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];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	esv20633	chr5:150941705-150955343	Strong transcription Enhancers Genic enhancers Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv600038	chr5:150950853-150955127	Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	esv1811399	chr5:150952122-150954941	Weak transcription Genic enhancers Enhancers Flanking Active TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	esv18629	chr5:150954478-150955343	Genic enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4958460	C5orf4	cis	cerebellum	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:150951200-150960400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr5:150951400-150959600	Weak transcription	Placenta	Placenta
3	chr5:150951600-150955800	Weak transcription	Primary B cells from cord blood	blood
4	chr5:150951600-150956400	Weak transcription	Primary B cells from peripheral blood	blood
5	chr5:150951600-150960400	Genic enhancers	NHEK	skin
6	chr5:150952000-150955800	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr5:150952600-150957000	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr5:150953400-150956000	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr5:150953600-150955400	Genic enhancers	HMEC	breast
10	chr5:150953600-150955600	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
11	chr5:150953600-150956800	Weak transcription	Fetal Thymus	thymus
12	chr5:150954000-150959600	Weak transcription	Esophagus	oesophagus

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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