Variant report

Variant	rs73395566
Chromosome Location	chr12:117356592-117356593
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:117172130..117177322-chr12:117351344..117357214,6	MCF-7	breast:
2	chr12:117341797..117344176-chr12:117354858..117357748,2	K562	blood:
3	chr12:117356337..117358081-chr12:117358101..117360193,2	K562	blood:
4	chr12:117348859..117352842-chr12:117353908..117358678,6	K562	blood:

Variant related genes	Relation type
ENSG00000111412	Chromatin interaction
ENSG00000135119	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs1032528	0.93[EUR][1000 genomes]
rs1051879	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11068246	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11068255	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11836743	0.80[EUR][1000 genomes]
rs12099584	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12308592	1.00[AMR][1000 genomes]
rs12313248	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12316811	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12317604	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12321592	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16947122	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16947131	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16947144	0.86[EUR][1000 genomes]
rs16947209	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs16947233	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4094199	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs41364651	1.00[EUR][1000 genomes]
rs4451816	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs57135901	0.86[EUR][1000 genomes]
rs58882507	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs59373313	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59623332	0.80[EUR][1000 genomes]
rs60272946	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs61178788	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs61207925	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs61288722	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7133142	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7133609	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7136880	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7302713	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7305313	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7314897	0.86[EUR][1000 genomes]
rs73395571	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73395601	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73397424	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73397478	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs73397488	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs73399480	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs73399483	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs73399502	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7958175	0.80[EUR][1000 genomes]
rs7959860	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7963012	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832524	chr12:117314110-117496576	Weak transcription Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1046811	chr12:117353904-117396230	Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region	5 gene(s)	inside rSNPs	n/a
3	esv1798657	chr12:117354067-117392259	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	5 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:117349600-117363600	Weak transcription	Brain Anterior Caudate	brain
2	chr12:117349600-117364000	Weak transcription	Brain Angular Gyrus	brain
3	chr12:117349600-117365800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr12:117349800-117362200	Weak transcription	Thymus	Thymus
5	chr12:117349800-117362400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr12:117349800-117363600	Weak transcription	Brain Substantia Nigra	brain
7	chr12:117349800-117363800	Weak transcription	Aorta	Aorta
8	chr12:117349800-117364000	Weak transcription	Adipose Nuclei	Adipose
9	chr12:117349800-117366000	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr12:117349800-117366000	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr12:117349800-117366000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr12:117349800-117371000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr12:117350000-117356600	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr12:117350000-117357000	Weak transcription	HUVEC	blood vessel
15	chr12:117350000-117358600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr12:117350000-117360000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr12:117350000-117363000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr12:117350000-117363800	Weak transcription	Brain Hippocampus Middle	brain
19	chr12:117350000-117365400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr12:117350000-117366000	Weak transcription	Fetal Lung	lung
21	chr12:117350200-117357000	Weak transcription	Fetal Thymus	thymus
22	chr12:117350200-117358600	Weak transcription	Psoas Muscle	Psoas
23	chr12:117350200-117359800	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr12:117350200-117362200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr12:117350200-117366000	Weak transcription	Stomach Smooth Muscle	stomach
26	chr12:117350200-117366000	Weak transcription	Monocytes-CD14+_RO01746	blood
27	chr12:117350200-117366800	Weak transcription	Spleen	Spleen
28	chr12:117350200-117367800	Weak transcription	Brain Germinal Matrix	brain
29	chr12:117350200-117371000	Weak transcription	Right Ventricle	heart
30	chr12:117350400-117356600	Weak transcription	Primary T cells from cord blood	blood
31	chr12:117350600-117370600	Weak transcription	Fetal Brain Male	brain
32	chr12:117351200-117356600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr12:117351200-117357000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
34	chr12:117351200-117357000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr12:117351200-117363800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr12:117352400-117364200	Weak transcription	Fetal Stomach	stomach
37	chr12:117352800-117358200	Enhancers	HepG2	liver
38	chr12:117353200-117357000	Weak transcription	Liver	Liver
39	chr12:117353200-117358000	Weak transcription	Dnd41	blood
40	chr12:117353400-117357600	Strong transcription	Fetal Muscle Leg	muscle
41	chr12:117353400-117358200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr12:117353600-117358600	Enhancers	Pancreas	Pancrea
43	chr12:117353800-117357200	Enhancers	Gastric	stomach
44	chr12:117353800-117359400	Enhancers	Stomach Mucosa	stomach
45	chr12:117354400-117356600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr12:117354400-117357400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
47	chr12:117354400-117362400	Weak transcription	Colon Smooth Muscle	Colon
48	chr12:117354600-117362800	Weak transcription	HUES64 Cell Line	embryonic stem cell
49	chr12:117354800-117357000	Weak transcription	Primary T helper cells PMA-I stimulated	--
50	chr12:117354800-117358600	Weak transcription	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links