Variant report

Variant	rs299842
Chromosome Location	chr17:63121229-63121230
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:16)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:16 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:62969930..62974223-chr17:63117213..63122121,8	MCF-7	breast:
2	chr17:63120023..63122659-chr17:63155151..63157208,2	MCF-7	breast:
3	chr17:63119041..63121818-chr17:63180202..63183514,3	MCF-7	breast:
4	chr17:63117665..63121583-chr17:63131912..63139197,8	K562	blood:
5	chr17:63118227..63121662-chr17:63122983..63126434,3	K562	blood:
6	chr17:63063950..63066539-chr17:63119557..63121268,2	MCF-7	breast:
7	chr17:63095279..63098151-chr17:63117643..63122061,8	MCF-7	breast:
8	chr17:63050818..63055787-chr17:63117380..63122567,9	MCF-7	breast:
9	chr17:63094877..63096816-chr17:63119599..63121828,2	K562	blood:
10	chr17:62914231..62916135-chr17:63119680..63121849,2	MCF-7	breast:
11	chr17:62968870..62973238-chr17:63117876..63121265,6	MCF-7	breast:
12	chr17:63099337..63101171-chr17:63120378..63121953,2	MCF-7	breast:
13	chr17:63118090..63122363-chr17:63130116..63137221,12	MCF-7	breast:
14	chr17:63118923..63121518-chr17:63126607..63128778,3	K562	blood:
15	chr17:63117696..63121583-chr17:63133620..63139197,5	K562	blood:
16	chr17:63046304..63055748-chr17:63116888..63122496,16	MCF-7	breast:

No data

No data

No data

Variant related genes	Relation type
ENSG00000176809	Chromatin interaction
ENSG00000265883	Chromatin interaction
ENSG00000266598	Chromatin interaction
ENSG00000108370	Chromatin interaction
ENSG00000214174	Chromatin interaction
ENSG00000120063	Chromatin interaction
ENSG00000263470	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1010271	0.83[CEU][hapmap];0.82[GIH][hapmap]
rs1533336	0.80[TSI][hapmap]
rs1554048	0.83[CEU][hapmap]
rs1561939	0.81[CEU][hapmap]
rs186167	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1867212	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1867213	0.82[EUR][1000 genomes]
rs2007835	1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2585859	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs299820	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs299821	1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs299824	1.00[JPT][hapmap]
rs299834	1.00[CEU][hapmap];0.82[JPT][hapmap];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs299837	0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs299838	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs414341	0.82[ASW][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs429583	0.83[CEU][hapmap]
rs4790958	0.82[JPT][hapmap];0.90[TSI][hapmap];0.85[EUR][1000 genomes]
rs9303478	0.83[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1066765	chr17:62649313-63124303	Flanking Active TSS Active TSS Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv530764	chr17:62939944-63278472	Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Strong transcription Bivalent Enhancer Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:63118800-63127000	Weak transcription	Spleen	Spleen
2	chr17:63119800-63121800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr17:63119800-63133600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr17:63120000-63121600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr17:63120200-63123400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr17:63120200-63124400	Weak transcription	Aorta	Aorta
7	chr17:63120200-63126400	Weak transcription	K562	blood

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