Variant report

Variant	rs10498890
Chromosome Location	chr6:73843763-73843764
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:73329575..73331858-chr6:73843020..73845929,2	K562	blood:
2	chr6:73121460..73122562-chr6:73843495..73844681,5	MCF-7	breast:
3	chr6:73843144..73846090-chr6:73848309..73850546,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RP11-257K9.7.1-1	chr6:73843692-73843826	NONHSAT113534

Variant related genes	Relation type
ENSG00000185760	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs16883380	0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16883387	0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2051024	0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs58439359	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59347822	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7744354	0.87[ASN][1000 genomes]
rs7764373	0.86[ASN][1000 genomes]
rs9446852	0.87[ASN][1000 genomes]
rs9446853	0.87[ASN][1000 genomes]
rs9446854	0.87[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	esv3410973	chr6:73716033-74419545	Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	191 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:73818000-73846400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:73821000-73849800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr6:73834000-73844000	Weak transcription	Primary T cells from cord blood	blood
4	chr6:73839200-73854400	Weak transcription	Aorta	Aorta
5	chr6:73839800-73844200	Weak transcription	Psoas Muscle	Psoas
6	chr6:73839800-73844800	Weak transcription	HSMMtube	muscle
7	chr6:73839800-73852400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr6:73840000-73844200	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr6:73840200-73844200	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr6:73840200-73848000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr6:73840200-73848200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr6:73840400-73848000	Weak transcription	NHEK	skin
13	chr6:73841400-73846400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
14	chr6:73841600-73844000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr6:73841800-73844800	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr6:73842000-73846200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr6:73842000-73855600	Weak transcription	HSMM	muscle
18	chr6:73843200-73844600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr6:73843600-73844200	Strong transcription	Primary B cells from cord blood	blood
20	chr6:73843600-73844400	Strong transcription	Primary hematopoietic stem cells	blood
21	chr6:73843600-73844600	ZNF genes & repeats	GM12878-XiMat	blood
22	chr6:73843600-73844800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr6:73843600-73844800	Enhancers	NHLF	lung
24	chr6:73843600-73845400	Enhancers	Fetal Lung	lung
25	chr6:73843600-73846000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr6:73843600-73846400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links