Variant report

Variant	rs6013902
Chromosome Location	chr20:52765078-52765079
allele	C/T
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:18)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:18 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:52739465..52740961-chr20:52765012..52766665,338	MCF-7	breast:
2	chr20:52765013..52767443-chr20:55839272..55842153,3	MCF-7	breast:
3	chr17:57921159..57923705-chr20:52764319..52767387,3	MCF-7	breast:
4	chr20:52739578..52741059-chr20:52765012..52766367,586	MCF-7	breast:
5	chr20:52715778..52716806-chr20:52765023..52766341,13	MCF-7	breast:
6	chr1:116184607..116186215-chr20:52763883..52765833,2	MCF-7	breast:
7	chr1:178749990..178750895-chr20:52764971..52765894,2	MCF-7	breast:
8	chr20:52739738..52741068-chr20:52764992..52766400,210	MCF-7	breast:
9	chr20:52764971..52766731-chr20:52811022..52812911,766	MCF-7	breast:
10	chr17:56735238..56739776-chr20:52762796..52768683,6	MCF-7	breast:
11	chr20:52764733..52766360-chr20:52810946..52812641,239	MCF-7	breast:
12	chr20:41007695..41010681-chr20:52764867..52766401,2	MCF-7	breast:
13	chr17:56735044..56737972-chr20:52763206..52766874,4	MCF-7	breast:
14	chr20:52763448..52765793-chr20:55839476..55841287,2	MCF-7	breast:
15	chr17:56716670..56718219-chr20:52765018..52766289,42	MCF-7	breast:
16	chr20:52715778..52716806-chr20:52765023..52766312,8	MCF-7	breast:
17	chr20:52765064..52766063-chr20:52814244..52815054,2	MCF-7	breast:
18	chr20:52743021..52744541-chr20:52765021..52766396,99	MCF-7	breast:

No data

No data

No data

Variant related genes	Relation type
ENSG00000101144	Chromatin interaction
ENSG00000202077	Chromatin interaction
ENSG00000173218	Chromatin interaction
ENSG00000266826	Chromatin interaction
ENSG00000226308	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs16999037	1.00[YRI][hapmap]
rs6022986	0.90[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv586224	chr20:52474850-53279490	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	338 gene(s)	inside rSNPs	diseases
2	nsv912945	chr20:52746724-52772741	Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	Chromatin interactive region miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv912946	chr20:52758416-52772741	Weak transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv834010	chr20:52759824-52932939	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	119 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:52758600-52768800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr20:52759000-52765400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr20:52762400-52765400	Enhancers	A549	lung
4	chr20:52764800-52766400	Enhancers	HepG2	liver
5	chr20:52764800-52766600	Enhancers	Hela-S3	cervix

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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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