Variant report

Variant	rs11829426
Chromosome Location	chr12:124400076-124400077
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:124391978..124393581-chr12:124398813..124401282,2	MCF-7	breast:
2	chr12:124397721..124401102-chr12:124402433..124404220,3	K562	blood:
3	chr12:124399326..124401527-chr12:124406576..124410878,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000197653	Chromatin interaction
ENSG00000270028	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs12099459	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1343668	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1873224	1.00[EUR][1000 genomes]
rs55680811	1.00[EUR][1000 genomes]
rs55996758	1.00[EUR][1000 genomes]
rs56169314	1.00[EUR][1000 genomes]
rs57352016	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57531416	1.00[EUR][1000 genomes]
rs58498731	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58556542	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58788131	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59002473	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59035549	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60560821	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60980349	1.00[EUR][1000 genomes]
rs61151021	1.00[EUR][1000 genomes]
rs61740383	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61749063	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7301547	1.00[EUR][1000 genomes]
rs73409428	1.00[EUR][1000 genomes]
rs7976904	1.00[EUR][1000 genomes]
rs939464	1.00[EUR][1000 genomes]
rs952631	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv498024	chr12:123994372-124459856	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	esv1811815	chr12:124374716-124424636	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv1832870	chr12:124374716-124424636	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv522321	chr12:124383950-124424636	Enhancers Strong transcription Genic enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv560507	chr12:124395931-124400278	Enhancers Bivalent Enhancer Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
6	nsv560515	chr12:124395982-124400261	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
7	nsv560531	chr12:124396187-124400261	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:124384000-124408400	Weak transcription	Fetal Brain Female	brain
2	chr12:124393800-124418000	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr12:124394200-124400200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr12:124394200-124418400	Weak transcription	Brain Cingulate Gyrus	brain
5	chr12:124397600-124404800	Strong transcription	Primary neutrophils fromperipheralblood	blood
6	chr12:124398000-124402800	Weak transcription	Fetal Brain Male	brain
7	chr12:124399000-124400800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr12:124399600-124400200	Enhancers	Colonic Mucosa	Colon
9	chr12:124399800-124402000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr12:124400000-124400400	Enhancers	Spleen	Spleen

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links