Variant report

Variant	rs9653945
Chromosome Location	chr3:142660706-142660707
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:9)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:142659991..142662651-chr3:142718305..142720193,2	MCF-7	breast:
2	chr3:142659743..142661707-chr3:142682382..142684881,3	K562	blood:
3	chr3:142660207..142664310-chr3:142680808..142683956,4	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-U2SURP-3	chr3:142660241-142661376	XLOC_002845
2	lnc-U2SURP-3	chr3:142660241-142661362	XLOC_002845
3	lnc-U2SURP-3	chr3:142660241-142661362	XLOC_002845
4	lnc-U2SURP-3	chr3:142658908-142661376	NONHSAT092490
5	lnc-U2SURP-3	chr3:142660241-142661378	NONHSAT092491
6	lnc-U2SURP-3	chr3:142660241-142661363	NONHSAT092492
7	lnc-U2SURP-3	chr3:142660241-142661363	NONHSAT092498
8	lnc-U2SURP-3	chr3:142660241-142661363	NONHSAT092493
9	lnc-U2SURP-3	chr3:142660241-142661364	NONHSAT092495

No data

No data

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs4683437	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4683438	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4683439	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4683707	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4683709	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4683710	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4683714	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4683715	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6770560	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73234774	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7650847	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9811066	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9821138	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9832727	0.89[EUR][1000 genomes]
rs9838306	0.91[AMR][1000 genomes];0.92[EUR][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	nsv877562	chr3:142573789-142846370	Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Active TSS 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	27 gene(s)	inside rSNPs	diseases
2	nsv4040	chr3:142649146-142675752	Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:142659800-142660800	Enhancers	Placenta	Placenta
2	chr3:142660200-142665800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr3:142660400-142661000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr3:142660400-142663800	Enhancers	Liver	Liver
5	chr3:142660600-142660800	Enhancers	HepG2	liver

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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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