Variant report

Variant	rs55920955
Chromosome Location	chr2:20254198-20254199
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:2)
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	GATA3	chr2:20253539-20254273	MCF-7	breast:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:20097738..20100164-chr2:20252963..20255680,2	K562	blood:
2	chr2:20208645..20229804-chr2:20247969..20254330,37	MCF-7	breast:
3	chr2:20100261..20103746-chr2:20249026..20255152,7	K562	blood:
4	chr2:20252121..20254542-chr2:20263523..20265245,3	K562	blood:
5	chr2:20252625..20255619-chr2:20431730..20433966,2	MCF-7	breast:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RHOB-2	chr2:20254046-20254290	NONHSAT069423
2	lnc-RHOB-2	chr2:20254046-20254257	ENSG00000223734.2

No data

No data

Variant related genes	Relation type
LAPTM4A	TF binding region
ENSG00000271991	Chromatin interaction
ENSG00000183891	Chromatin interaction
ENSG00000132031	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1016317	0.83[ASN][1000 genomes]
rs1028051	0.83[ASN][1000 genomes]
rs12052278	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12233028	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12478941	0.80[ASN][1000 genomes]
rs16987297	0.80[ASN][1000 genomes]
rs1849600	0.88[EUR][1000 genomes]
rs2010930	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3754907	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3754908	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3769763	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4666352	0.88[EUR][1000 genomes]
rs4666353	0.88[EUR][1000 genomes]
rs4666354	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57887920	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57965673	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60557282	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs768377	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:20252000-20261400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr2:20252400-20266000	Weak transcription	Pancreas	Pancrea
3	chr2:20253200-20254600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr2:20253200-20255000	Enhancers	K562	blood
5	chr2:20253200-20264400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr2:20253800-20254200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr2:20253800-20254400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr2:20253800-20254600	Weak transcription	A549	lung
9	chr2:20254000-20254200	Enhancers	Placenta	Placenta
10	chr2:20254000-20254200	Flanking Active TSS	HepG2	liver

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Input of quick search could be:

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

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