Variant report

Variant	rs4729523
Chromosome Location	chr7:98850491-98850492
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10274646	0.92[CEU][hapmap];0.80[TSI][hapmap];0.80[EUR][1000 genomes]
rs11769698	1.00[CEU][hapmap];0.90[CHB][hapmap];0.84[CHD][hapmap];0.97[GIH][hapmap];0.94[JPT][hapmap];0.81[MKK][hapmap];0.96[TSI][hapmap];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11976919	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28608208	0.86[EUR][1000 genomes]
rs6465747	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7792178	1.00[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7798877	0.83[CEU][hapmap]

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	esv3433144	chr7:98777878-99060209	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	nsv831068	chr7:98819572-99006481	Weak transcription Active TSS Genic enhancers Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs4729523	CYP3A7	cis	parietal	SCAN
rs4729523	GATS	cis	parietal	SCAN
rs4729523	CPSF4	cis	parietal	SCAN
rs4729523	TAC1	cis	parietal	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:98843200-98851800	Weak transcription	NHEK	skin
2	chr7:98846600-98851000	Weak transcription	HMEC	breast
3	chr7:98848800-98850600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
4	chr7:98849600-98850600	Enhancers	HUES6 Cell Line	embryonic stem cell
5	chr7:98849800-98850600	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr7:98850200-98850600	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr7:98850200-98850600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr7:98850200-98851600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr7:98850400-98850600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr7:98850400-98851800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr7:98850400-98853200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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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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