Variant report

Variant	rs5754143
Chromosome Location	chr22:32939476-32939477
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	22:31998728-32011472..22:32937912-32941862	K562	blood:
2	chr22:32938120..32940218-chr22:32990047..32992298,2	MCF-7	breast:
3	chr22:32935341..32940851-chr22:32952313..32956913,8	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198089	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs13055961	1.00[CHB][hapmap]
rs2710373	0.96[CEU][hapmap];0.83[CHB][hapmap];0.84[CHD][hapmap];0.96[GIH][hapmap];0.92[JPT][hapmap];0.94[TSI][hapmap];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2710376	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4507	0.96[CEU][hapmap];0.81[CHB][hapmap];1.00[GIH][hapmap];0.94[TSI][hapmap];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4821072	0.84[ASN][1000 genomes]
rs5749458	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs5749459	0.93[EUR][1000 genomes]
rs5754135	0.83[CHB][hapmap];0.84[CHD][hapmap];0.92[JPT][hapmap];0.84[ASN][1000 genomes]
rs5754136	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs5754141	0.83[CHB][hapmap];0.84[CHD][hapmap];0.87[GIH][hapmap];0.92[JPT][hapmap];0.82[TSI][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs58033264	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs762907	1.00[CHB][hapmap];0.91[CHD][hapmap];0.84[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	nsv914981	chr22:32912277-32940660	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:32929000-32940800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr22:32934200-32942200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr22:32935200-32942800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr22:32935800-32939600	Enhancers	Right Ventricle	heart
5	chr22:32936200-32941400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr22:32936600-32941000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr22:32936800-32941400	Weak transcription	HepG2	liver
8	chr22:32936800-32942000	Weak transcription	Liver	Liver
9	chr22:32937200-32939600	Enhancers	Ovary	ovary
10	chr22:32937200-32939800	Enhancers	Left Ventricle	heart
11	chr22:32937200-32940000	Enhancers	Right Atrium	heart
12	chr22:32937200-32942000	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr22:32937400-32941400	Weak transcription	Hela-S3	cervix
14	chr22:32937600-32939800	Enhancers	Lung	lung
15	chr22:32938000-32940400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
16	chr22:32938200-32939800	Enhancers	Placenta	Placenta
17	chr22:32938800-32939800	Enhancers	Adipose Nuclei	Adipose
18	chr22:32938800-32941000	Weak transcription	HSMM	muscle
19	chr22:32938800-32942200	Weak transcription	K562	blood
20	chr22:32939200-32940600	Weak transcription	Fetal Stomach	stomach
21	chr22:32939200-32940800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr22:32939200-32940800	Weak transcription	HSMMtube	muscle
23	chr22:32939200-32940800	Weak transcription	NHDF-Ad	bronchial
24	chr22:32939200-32940800	Weak transcription	NHLF	lung
25	chr22:32939200-32941000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr22:32939200-32942400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr22:32939200-32942400	Weak transcription	Fetal Muscle Trunk	muscle
28	chr22:32939200-32943000	Weak transcription	Spleen	Spleen
29	chr22:32939400-32942000	Weak transcription	Fetal Lung	lung
30	chr22:32939400-32942400	Weak transcription	Stomach Smooth Muscle	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links