Variant report

Variant	rs56401538
Chromosome Location	chr7:25640558-25640559
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11539443	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17151702	1.00[ASN][1000 genomes]
rs17251882	1.00[ASN][1000 genomes]
rs17317200	1.00[ASN][1000 genomes]
rs17367591	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17367682	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17464623	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17727166	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17783371	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs3857727	1.00[ASN][1000 genomes]
rs55803172	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55938803	1.00[ASN][1000 genomes]
rs56175323	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56234882	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56241258	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73084000	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73085920	0.86[EUR][1000 genomes]
rs73085945	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73085983	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73085990	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73085991	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7802027	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	nsv1016813	chr7:25405859-26150509	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	108 gene(s)	inside rSNPs	diseases
2	nsv538803	chr7:25405859-26150509	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	108 gene(s)	inside rSNPs	diseases
3	esv2753823	chr7:25626156-25655093	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:25636400-25640600	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr7:25636400-25642200	Weak transcription	Fetal Intestine Small	intestine
3	chr7:25636400-25642600	Weak transcription	Fetal Intestine Large	intestine
4	chr7:25636600-25642600	Weak transcription	Fetal Stomach	stomach
5	chr7:25637400-25642800	Weak transcription	Aorta	Aorta
6	chr7:25638600-25642600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr7:25638800-25642200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr7:25638800-25642400	Weak transcription	Liver	Liver
9	chr7:25638800-25642600	Weak transcription	Pancreas	Pancrea
10	chr7:25638800-25642800	Weak transcription	Psoas Muscle	Psoas

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