Variant report

Variant	rs6082981
Chromosome Location	chr20:23011278-23011279
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:4)
CpG islands
(count:0)
Chromatin interactive
region (count:0)
LncRNA
region (count:5)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:4 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	USF1	chr20:23011085-23011355	K562	blood:	n/a	n/a
2	MAX	chr20:23011103-23011376	K562	blood:	n/a	n/a
3	RCOR1	chr20:23011022-23011351	K562	blood:	n/a	n/a
4	RCOR1	chr20:23011119-23011319	K562	blood:	n/a	n/a

No data

No data

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-THBD-1	chr20:23011181-23011443	XLOC_013687
2	lnc-THBD-1	chr20:23011181-23011422	XLOC_013687
3	lnc-THBD-1	chr20:23011181-23011419	XLOC_013687
4	lnc-THBD-1	chr20:23011181-23011422	ENSG00000230492.1
5	lnc-THBD-1	chr20:23011181-23011393	NONHSAT079018

No data

No data

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

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

rs_ID	r²[population]
rs11696134	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs220979	1.00[YRI][hapmap]
rs220990	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2235951	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2235952	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2268199	0.81[CEU][hapmap]
rs2567608	0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2567609	0.85[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2567613	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2567614	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6082979	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6113909	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6515299	0.82[CEU][hapmap]
rs7262749	0.82[CEU][hapmap]
rs7361512	0.94[ASN][1000 genomes]
rs8120756	0.88[CEU][hapmap]

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	nsv912816	chr20:22757960-23062927	Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:23001000-23015800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr20:23008600-23011800	Enhancers	Primary hematopoietic stem cells short term culture	blood
3	chr20:23009000-23011600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr20:23010200-23011600	Enhancers	Monocytes-CD14+_RO01746	blood
5	chr20:23010200-23012600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr20:23010200-23012800	Weak transcription	Primary hematopoietic stem cells	blood
7	chr20:23010400-23011400	Weak transcription	Dnd41	blood
8	chr20:23010600-23011800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr20:23010600-23012800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr20:23010800-23011400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr20:23011000-23011800	Enhancers	Primary monocytes fromperipheralblood	blood
12	chr20:23011200-23011400	Enhancers	K562	blood
13	chr20:23011200-23011600	Enhancers	H9 Cell Line	embryonic stem cell
14	chr20:23011200-23012600	Enhancers	Fetal Heart	heart
15	chr20:23011200-23013800	Enhancers	Left Ventricle	heart

Quick Search:

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

what's new

Quick links