Variant report

Variant	rs62247899
Chromosome Location	chr3:42881887-42881888
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr3:42881840-42881990	HBMEC	blood vessel:	n/a	chr3:42881919-42881932
2	ZNF384	chr3:42881173-42882091	GM12878	blood:	n/a	n/a
3	ZNF384	chr3:42881784-42881984	K562	blood:	n/a	n/a
4	CTCF	chr3:42881760-42881910	AG09319	gingival:	n/a	n/a
5	RCOR1	chr3:42881886-42882067	K562	blood:	n/a	n/a
6	SPI1	chr3:42881686-42881980	GM12878	blood:	n/a	chr3:42881778-42881787
7	CTCF	chr3:42881840-42881990	SAEC	small airway:	n/a	chr3:42881919-42881932
8	CTCF	chr3:42881760-42881910	HCM	heart:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:42881286..42884459-chr3:42886428..42891439,4	K562	blood:
2	chr3:42869285..42872521-chr3:42879502..42882815,4	MCF-7	breast:

Variant related genes	Relation type
ACKR2	TF binding region

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs17239701	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62247895	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62247896	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62247897	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62247898	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62247900	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62247902	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62247903	0.96[EUR][1000 genomes]
rs62247904	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62247905	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62247907	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62247908	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62247909	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62247910	0.98[EUR][1000 genomes]
rs62247911	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9861236	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:42861600-42885400	Weak transcription	Pancreas	Pancrea
2	chr3:42871200-42885000	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr3:42871400-42885400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:42873200-42883000	Weak transcription	Right Atrium	heart
5	chr3:42873200-42885400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr3:42874400-42882800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr3:42878400-42887600	Weak transcription	Fetal Heart	heart
8	chr3:42880000-42882000	Strong transcription	Placenta	Placenta
9	chr3:42880800-42882000	Active TSS	A549	lung
10	chr3:42880800-42883400	Enhancers	HepG2	liver
11	chr3:42881000-42882000	Enhancers	Primary B cells from peripheral blood	blood
12	chr3:42881000-42887400	Weak transcription	Ovary	ovary
13	chr3:42881200-42882000	Enhancers	K562	blood
14	chr3:42881200-42883000	Weak transcription	Stomach Smooth Muscle	stomach
15	chr3:42881200-42884800	Weak transcription	Aorta	Aorta
16	chr3:42881200-42884800	Weak transcription	HSMMtube	muscle
17	chr3:42881200-42887600	Weak transcription	Brain Hippocampus Middle	brain
18	chr3:42881200-42887600	Weak transcription	Colon Smooth Muscle	Colon
19	chr3:42881200-42887600	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr3:42881200-42887600	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr3:42881400-42884800	Weak transcription	Adipose Nuclei	Adipose
22	chr3:42881400-42885200	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr3:42881400-42887600	Weak transcription	Fetal Kidney	kidney
24	chr3:42881600-42882800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr3:42881800-42882000	Enhancers	GM12878-XiMat	blood
26	chr3:42881800-42883600	Enhancers	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links