Variant report

Variant	rs6580800
Chromosome Location	chr12:51568574-51568575
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:6)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:6 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TAL1	chr12:51568382-51568667	K562	blood:	n/a	n/a
2	MYC	chr12:51568406-51568691	K562	blood:	n/a	n/a
3	CCNT2	chr12:51568416-51568711	K562	blood:	n/a	n/a
4	GATA2	chr12:51568350-51568747	K562	blood:	n/a	n/a
5	RCOR1	chr12:51568429-51568694	K562	blood:	n/a	n/a
6	TBL1XR1	chr12:51568532-51568617	K562	blood:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr12:51568437..51570168-chr12:51571133..51573432,2	K562	blood:
2	chr12:51564447..51569582-chr12:51630930..51635335,8	K562	blood:
3	chr12:51475324..51477948-chr12:51566462..51569488,3	MCF-7	breast:
4	chr12:51563450..51568971-chr12:51609008..51613972,14	K562	blood:
5	chr12:51565300..51568760-chr12:51661642..51664290,3	K562	blood:
6	chr12:51567118..51569511-chr12:51775066..51777946,2	K562	blood:
7	chr12:51564257..51569582-chr12:51630930..51636873,13	K562	blood:

No data

Variant related genes	Relation type
TFCP2	TF binding region
ENSG00000110925	Chromatin interaction
ENSG00000170545	Chromatin interaction
ENSG00000184271	Chromatin interaction
ENSG00000139629	Chromatin interaction
ENSG00000183283	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10783414	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10783416	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10783417	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10783418	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10876143	0.85[EUR][1000 genomes]
rs10876146	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1565721	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1984544	0.81[ASN][1000 genomes]
rs2029686	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2436645	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2436646	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2436647	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2640511	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2640521	0.83[EUR][1000 genomes]
rs2640523	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2640527	0.81[ASN][1000 genomes]
rs2730647	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2730650	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2730654	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2956428	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6580799	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6580801	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6580803	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6580804	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7306522	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7959378	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34039	chr12:51326702-51671911	Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	93 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:51565200-51568600	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr12:51567400-51569000	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr12:51567400-51569200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr12:51567400-51577200	Weak transcription	Fetal Kidney	kidney
5	chr12:51567400-51583400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr12:51567400-51584000	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr12:51567400-51610600	Weak transcription	Right Atrium	heart
8	chr12:51567800-51568600	Flanking Active TSS	K562	blood
9	chr12:51568000-51568600	Enhancers	Primary neutrophils fromperipheralblood	blood
10	chr12:51568000-51568600	Enhancers	HepG2	liver
11	chr12:51568400-51568600	Enhancers	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links