Variant report

Variant	rs4252138
Chromosome Location	chr6:161154524-161154525
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:15)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr6:161153745-161154652	SK-N-SH	brain:	n/a	n/a
2	CTCF	chr6:161154001-161154580	HCT-116	colon:	n/a	n/a
3	POLR2A	chr6:161154523-161154711	H1-hESC	embryonic stem cell:	n/a	n/a
4	RAD21	chr6:161154038-161154526	A549	lung:	n/a	n/a
5	CTCF	chr6:161153968-161154524	K562	blood:	n/a	n/a
6	RAD21	chr6:161153999-161154657	HCT-116	colon:	n/a	n/a
7	RAD21	chr6:161154006-161154563	HCT-116	colon:	n/a	n/a
8	SMC3	chr6:161153924-161154532	SK-N-SH	brain:	n/a	n/a
9	CTCF	chr6:161153920-161154626	A549	lung:	n/a	n/a
10	CTCF	chr6:161154400-161154550	HFF-Myc	foreskin:	n/a	n/a
11	RAD21	chr6:161154150-161154529	MCF-7	breast:	n/a	n/a
12	CTCF	chr6:161154380-161154530	Hela-S3	cervix:	n/a	n/a
13	RAD21	chr6:161153966-161154577	SK-N-SH	brain:	n/a	n/a
14	RAD21	chr6:161153960-161154540	MCF-7	breast:	n/a	n/a
15	RAD21	chr6:161154024-161154539	HepG2	liver:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:161153756..161154634-chr6:161794865..161795506,2	K562	blood:
2	chr6:161153719..161154752-chr6:161413517..161414074,3	K562	blood:
3	chr6:161152558..161155557-chr6:161793126..161797169,4	K562	blood:
4	chr6:161154056..161155892-chr6:161501781..161503522,2	K562	blood:

No data

No data

No data

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

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11961341	1.00[AMR][1000 genomes]
rs11961602	1.00[AMR][1000 genomes]
rs11965952	1.00[AMR][1000 genomes]
rs11966302	1.00[AMR][1000 genomes]
rs11966390	1.00[AMR][1000 genomes]
rs11969328	1.00[AMR][1000 genomes]
rs4252085	1.00[AMR][1000 genomes]
rs4252089	1.00[AMR][1000 genomes]
rs4252094	1.00[AMR][1000 genomes]
rs4252095	1.00[AMR][1000 genomes]
rs4252111	1.00[AMR][1000 genomes]
rs57672810	1.00[AMR][1000 genomes]
rs61298048	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758089	chr6:160372244-161234665	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	esv2759484	chr6:160372244-161234665	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	nsv1019113	chr6:161127584-161197558	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	esv3352911	chr6:161140543-161324358	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv522773	chr6:161152449-161170835	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161140800-161175200	Strong transcription	Liver	Liver
2	chr6:161154200-161156000	Enhancers	GM12878-XiMat	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