Variant report

Variant	rs7620524
Chromosome Location	chr3:140659454-140659455
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:1 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	BATF	chr3:140659289-140659653	GM12878	blood:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:140658799..140662032-chr3:140683166..140686698,4	MCF-7	breast:
2	chr3:140651352..140654120-chr3:140658675..140660598,2	K562	blood:
3	chr3:140658725..140662722-chr3:140687297..140693458,7	MCF-7	breast:
4	chr17:56707856..56710618-chr3:140659373..140661853,2	MCF-7	breast:
5	chr3:140657892..140662868-chr3:140689081..140692689,5	MCF-7	breast:

No data

No data

No data

Variant related genes	Relation type
SLC25A36	TF binding region
ENSG00000212195	Chromatin interaction
ENSG00000248773	Chromatin interaction
ENSG00000114120	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1109284	1.00[CEU][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes]
rs13099216	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes]
rs13100471	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34267131	0.94[EUR][1000 genomes]
rs34434275	0.87[EUR][1000 genomes]
rs34605552	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34677627	0.92[EUR][1000 genomes]
rs35633570	0.87[EUR][1000 genomes]
rs6785188	0.96[EUR][1000 genomes]
rs7616174	1.00[CEU][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes]
rs7628400	0.93[EUR][1000 genomes]
rs7638025	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs878117	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs9917645	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv591865	chr3:140396022-140728850	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv1005522	chr3:140454632-140685915	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv536732	chr3:140454632-140685915	Strong transcription Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv521218	chr3:140643038-140665147	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	esv3364537	chr3:140646303-140668571	ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:140650400-140660200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:140657000-140659800	Weak transcription	Hela-S3	cervix
3	chr3:140659000-140660000	Enhancers	HepG2	liver
4	chr3:140659200-140659600	Enhancers	Dnd41	blood
5	chr3:140659200-140660200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
6	chr3:140659400-140659800	Enhancers	H1 Cell Line	embryonic stem cell
7	chr3:140659400-140659800	Enhancers	Thymus	Thymus
8	chr3:140659400-140662200	Active TSS	Brain Angular Gyrus	brain

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

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