Variant report

Variant	rs736707
Chromosome Location	chr7:103130403-103130404
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10085736	0.86[AMR][1000 genomes]
rs2528861	0.94[CEU][hapmap];0.93[CHB][hapmap];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2528872	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2711843	0.82[CEU][hapmap]
rs2711844	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2711847	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2711849	0.94[CEU][hapmap];0.91[CHB][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4729918	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7808106	0.84[AMR][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	nsv1030446	chr7:102932689-103221638	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv491911	chr7:102967150-103403622	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs736707	PDAP1	cis	parietal	SCAN
rs736707	CUX1	cis	cerebellum	SCAN
rs736707	ORC5L	cis	parietal	SCAN
rs736707	SLC26A5	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:103118400-103138000	Weak transcription	Brain Cingulate Gyrus	brain
2	chr7:103121800-103130800	Weak transcription	Brain Hippocampus Middle	brain
3	chr7:103122800-103141000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr7:103128000-103131400	Strong transcription	K562	blood
5	chr7:103128800-103130800	Strong transcription	Brain Substantia Nigra	brain
6	chr7:103129000-103130800	Strong transcription	Brain Inferior Temporal Lobe	brain
7	chr7:103129000-103131200	Strong transcription	HepG2	liver
8	chr7:103129000-103134800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr7:103129200-103131200	Strong transcription	Brain Anterior Caudate	brain
10	chr7:103129800-103133400	Weak transcription	Stomach Mucosa	stomach
11	chr7:103130000-103130800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr7:103130000-103131200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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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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