Variant report

Variant	rs56146538
Chromosome Location	chr2:111485757-111485758
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	JUND	chr2:111485558-111485856	HepG2	liver:	n/a	n/a
2	STAT3	chr2:111485679-111485799	MCF10A-Er-Src	breast:	n/a	n/a
3	FOS	chr2:111485585-111485853	MCF10A-Er-Src	breast:	n/a	n/a
4	FOS	chr2:111485515-111485853	MCF10A-Er-Src	breast:	n/a	n/a
5	JUN	chr2:111485546-111485832	HepG2	liver:	n/a	chr2:111485676-111485689

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:111475433..111477903-chr2:111484707..111487125,2	MCF-7	breast:

Variant related genes	Relation type
ACOXL	TF binding region

Extended variants
information (count: 109 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:104)

rs_ID	r²[population]
rs13421709	0.86[ASN][1000 genomes]
rs13426054	0.83[ASN][1000 genomes]
rs17041539	0.82[EUR][1000 genomes]
rs17041553	0.82[EUR][1000 genomes]
rs17041554	0.82[EUR][1000 genomes]
rs17041555	0.82[EUR][1000 genomes]
rs17041561	0.82[EUR][1000 genomes]
rs28452164	1.00[EUR][1000 genomes]
rs34026418	0.82[EUR][1000 genomes]
rs3817265	0.82[EUR][1000 genomes]
rs4255970	1.00[EUR][1000 genomes]
rs55682108	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs55780486	0.82[EUR][1000 genomes]
rs55849112	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55857945	1.00[EUR][1000 genomes]
rs55875504	1.00[EUR][1000 genomes]
rs55875530	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs55927063	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56010803	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56031628	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56062220	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56110941	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56165253	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56169320	0.82[EUR][1000 genomes]
rs56177778	1.00[EUR][1000 genomes]
rs56181028	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56202720	0.86[ASN][1000 genomes]
rs56238325	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56260092	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56272335	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56281800	0.82[EUR][1000 genomes]
rs56289191	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56320021	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57101781	0.82[EUR][1000 genomes]
rs57318054	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57847126	0.82[EUR][1000 genomes]
rs57862073	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58054304	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs58569659	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58588523	1.00[EUR][1000 genomes]
rs59258102	1.00[EUR][1000 genomes]
rs59413237	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60185821	0.82[EUR][1000 genomes]
rs60357733	1.00[EUR][1000 genomes]
rs61124407	1.00[EUR][1000 genomes]
rs61376946	0.82[EUR][1000 genomes]
rs61637608	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs66616139	1.00[EUR][1000 genomes]
rs68130860	0.83[ASN][1000 genomes]
rs72828836	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72828838	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72828843	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72828844	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72828845	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72828846	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72828847	0.83[ASN][1000 genomes]
rs72828848	0.85[ASN][1000 genomes]
rs72828849	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72828850	1.00[ASN][1000 genomes]
rs72828851	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72828852	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72828854	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72828856	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72828857	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72828859	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72828861	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72830976	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72830979	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72830980	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72830982	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72830984	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72830985	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72830986	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72830989	1.00[EUR][1000 genomes]
rs72830990	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72830993	1.00[EUR][1000 genomes]
rs72830995	0.92[EUR][1000 genomes]
rs72830996	0.83[AMR][1000 genomes]
rs72830997	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72831000	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72832803	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72832804	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72832809	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72832810	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72832813	1.00[EUR][1000 genomes]
rs72832815	1.00[EUR][1000 genomes]
rs72832816	1.00[EUR][1000 genomes]
rs72832817	1.00[EUR][1000 genomes]
rs72832818	1.00[EUR][1000 genomes]
rs72832820	0.82[EUR][1000 genomes]
rs72832821	0.82[EUR][1000 genomes]
rs72832822	0.82[EUR][1000 genomes]
rs72832824	0.82[EUR][1000 genomes]
rs72832826	0.82[EUR][1000 genomes]
rs72832828	0.82[EUR][1000 genomes]
rs72832837	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72832838	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72832839	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72832841	0.82[EUR][1000 genomes]
rs72832842	0.82[EUR][1000 genomes]
rs72832843	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72832846	0.82[EUR][1000 genomes]
rs977406	0.82[EUR][1000 genomes]
rs981196	0.82[EUR][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	nsv1008581	chr2:110826262-111487021	Weak transcription Genic enhancers Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv874838	chr2:111376870-112046226	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
3	nsv874839	chr2:111400934-111868010	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1008758	chr2:111415136-111626467	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv535890	chr2:111415136-111626467	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 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	chr2:111478400-111490000	Weak transcription	Right Atrium	heart
2	chr2:111481200-111486000	Enhancers	Dnd41	blood
3	chr2:111484000-111486800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr2:111484200-111486400	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr2:111484200-111487000	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr2:111484600-111486800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr2:111485600-111485800	Weak transcription	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links