Variant report

Variant	rs3889470
Chromosome Location	chr12:121097450-121097451
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:121097218..121098890-chr12:121123292..121124824,2	MCF-7	breast:
2	chr12:121095512..121100910-chr12:121122531..121126551,5	MCF-7	breast:
3	chr12:121093807..121095684-chr12:121097448..121099192,2	K562	blood:

Variant related genes	Relation type
ENSG00000110917	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs12821493	1.00[ASN][1000 genomes]
rs2138250	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2233673	1.00[ASN][1000 genomes]
rs34815312	1.00[ASN][1000 genomes]
rs35151295	1.00[ASN][1000 genomes]
rs35267083	1.00[ASN][1000 genomes]
rs3850521	1.00[ASN][1000 genomes]
rs55645249	1.00[ASN][1000 genomes]
rs55647329	1.00[ASN][1000 genomes]
rs55660947	1.00[ASN][1000 genomes]
rs55874815	1.00[ASN][1000 genomes]
rs55914930	1.00[ASN][1000 genomes]
rs55941696	1.00[ASN][1000 genomes]
rs55970240	1.00[ASN][1000 genomes]
rs55980956	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56084677	1.00[ASN][1000 genomes]
rs56163702	1.00[ASN][1000 genomes]
rs56175661	1.00[ASN][1000 genomes]
rs56178989	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56183824	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56189047	1.00[ASN][1000 genomes]
rs56206244	1.00[ASN][1000 genomes]
rs56284009	1.00[ASN][1000 genomes]
rs56366632	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56391085	1.00[ASN][1000 genomes]
rs56401401	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs58235352	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73213106	1.00[ASN][1000 genomes]
rs73214885	1.00[ASN][1000 genomes]
rs73214888	1.00[ASN][1000 genomes]
rs73214894	1.00[ASN][1000 genomes]
rs73214896	1.00[ASN][1000 genomes]
rs73222778	1.00[ASN][1000 genomes]
rs73222780	1.00[ASN][1000 genomes]
rs73222784	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73222786	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73222787	0.81[AMR][1000 genomes]
rs73222794	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73222795	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73225003	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73225012	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73225023	1.00[ASN][1000 genomes]
rs73225093	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73225101	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73227016	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73227022	1.00[ASN][1000 genomes]
rs73227026	1.00[ASN][1000 genomes]
rs73227027	1.00[ASN][1000 genomes]
rs73227029	1.00[ASN][1000 genomes]
rs73227033	1.00[ASN][1000 genomes]
rs73227036	1.00[ASN][1000 genomes]
rs73227038	1.00[ASN][1000 genomes]
rs73229118	1.00[ASN][1000 genomes]
rs73229126	1.00[ASN][1000 genomes]
rs73229149	1.00[ASN][1000 genomes]
rs73229151	1.00[ASN][1000 genomes]
rs73229157	1.00[ASN][1000 genomes]
rs73229160	1.00[ASN][1000 genomes]
rs73229162	1.00[ASN][1000 genomes]
rs73230347	1.00[ASN][1000 genomes]
rs73230349	1.00[ASN][1000 genomes]
rs73230352	1.00[ASN][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	nsv521928	chr12:121041728-121761800	Genic enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
2	nsv899557	chr12:121069201-121189116	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv1037070	chr12:121069938-121459047	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
4	nsv1045923	chr12:121082203-121146219	Strong transcription Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
5	esv3357633	chr12:121097169-121101867	Weak transcription Strong transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:121090000-121106000	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr12:121091000-121104400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr12:121091000-121107000	Weak transcription	Brain Anterior Caudate	brain
4	chr12:121091200-121106600	Weak transcription	Brain Cingulate Gyrus	brain
5	chr12:121091200-121106800	Weak transcription	Brain Germinal Matrix	brain
6	chr12:121092000-121098000	Weak transcription	Brain Angular Gyrus	brain
7	chr12:121093000-121107200	Weak transcription	Right Atrium	heart
8	chr12:121093200-121107000	Weak transcription	Colon Smooth Muscle	Colon
9	chr12:121093200-121107200	Weak transcription	Fetal Lung	lung
10	chr12:121095600-121104400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr12:121096000-121097600	Weak transcription	Fetal Brain Female	brain
12	chr12:121096200-121105800	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr12:121096400-121098200	Enhancers	Spleen	Spleen
14	chr12:121096600-121097600	Enhancers	Primary monocytes fromperipheralblood	blood
15	chr12:121096600-121097600	Enhancers	Rectal Mucosa Donor 31	rectum
16	chr12:121096600-121097800	Enhancers	Monocytes-CD14+_RO01746	blood
17	chr12:121096600-121100400	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr12:121097000-121100200	Strong transcription	Brain Inferior Temporal Lobe	brain
19	chr12:121097200-121098400	Weak transcription	Left Ventricle	heart
20	chr12:121097200-121099200	Strong transcription	Fetal Stomach	stomach
21	chr12:121097200-121099800	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr12:121097200-121107000	Weak transcription	Adipose Nuclei	Adipose
23	chr12:121097400-121097600	Bivalent Enhancer	Colonic Mucosa	Colon

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