Variant report

Variant	rs29507
Chromosome Location	chr7:41203604-41203605
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10237832	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10237840	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10251668	1.00[ASN][1000 genomes]
rs10261869	0.83[AMR][1000 genomes]
rs10264020	0.99[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10274378	0.83[AMR][1000 genomes]
rs13438627	1.00[ASN][1000 genomes]
rs17623158	1.00[ASN][1000 genomes]
rs17623425	1.00[ASN][1000 genomes]
rs17690493	1.00[ASN][1000 genomes]
rs28473068	1.00[ASN][1000 genomes]
rs28627677	1.00[ASN][1000 genomes]
rs57080178	1.00[ASN][1000 genomes]
rs58767715	1.00[ASN][1000 genomes]
rs6966665	1.00[ASN][1000 genomes]
rs73321554	1.00[ASN][1000 genomes]
rs73687944	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73687945	0.83[AMR][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	nsv1034605	chr7:41096638-41222426	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv887989	chr7:41125447-41337044	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1028983	chr7:41165668-41635954	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs29507	TBRG4	cis	cerebellum	SCAN
rs29507	NPC1L1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:41189400-41222400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr7:41202000-41204200	Enhancers	NHDF-Ad	bronchial
3	chr7:41202400-41204000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr7:41203400-41204200	Enhancers	HSMMtube	muscle
5	chr7:41203400-41204400	Enhancers	Muscle Satellite Cultured Cells	--
6	chr7:41203400-41204600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr7:41203600-41204000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr7:41203600-41204400	Enhancers	HSMM	muscle
9	chr7:41203600-41204600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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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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