Variant report

Variant	rs13097295
Chromosome Location	chr3:69358580-69358581
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:69211406..69213651-chr3:69358510..69360667,2	MCF-7	breast:

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs11714469	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13061745	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13063137	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13066342	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34609588	0.85[AMR][1000 genomes]
rs4855385	0.83[ASN][1000 genomes]
rs4855386	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876935	chr3:69307942-69401248	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv1007730	chr3:69355932-69730587	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69343800-69362200	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr3:69344000-69370000	Weak transcription	Fetal Brain Male	brain
3	chr3:69344000-69370000	Weak transcription	Fetal Muscle Leg	muscle
4	chr3:69348000-69369400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr3:69349200-69368800	Weak transcription	Fetal Brain Female	brain
6	chr3:69350000-69374200	Weak transcription	Aorta	Aorta
7	chr3:69355200-69359000	Weak transcription	Primary hematopoietic stem cells	blood
8	chr3:69355600-69359400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr3:69355800-69361800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr3:69356000-69361600	Strong transcription	NHEK	skin
11	chr3:69356000-69373200	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr3:69356200-69359000	Weak transcription	HSMM	muscle
13	chr3:69356200-69368800	Weak transcription	Fetal Heart	heart
14	chr3:69356200-69369800	Weak transcription	Fetal Lung	lung
15	chr3:69356400-69361800	Weak transcription	HSMMtube	muscle
16	chr3:69356400-69371000	Weak transcription	Placenta	Placenta
17	chr3:69356400-69372000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr3:69356600-69359200	Strong transcription	Lung	lung
19	chr3:69356800-69358600	Strong transcription	Primary neutrophils fromperipheralblood	blood
20	chr3:69356800-69359000	Weak transcription	Brain Hippocampus Middle	brain
21	chr3:69356800-69359400	Strong transcription	Thymus	Thymus
22	chr3:69356800-69361800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr3:69356800-69362600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr3:69356800-69362800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr3:69356800-69362800	Strong transcription	Monocytes-CD14+_RO01746	blood
26	chr3:69357000-69359400	Strong transcription	HMEC	breast
27	chr3:69357000-69362600	Strong transcription	Dnd41	blood
28	chr3:69357200-69358600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
29	chr3:69357200-69362600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr3:69357200-69362800	Strong transcription	Primary monocytes fromperipheralblood	blood
31	chr3:69357400-69359200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr3:69357600-69359000	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr3:69357600-69366400	Weak transcription	Brain Angular Gyrus	brain
34	chr3:69357800-69358600	Weak transcription	Brain Substantia Nigra	brain
35	chr3:69357800-69362200	Weak transcription	Brain Anterior Caudate	brain
36	chr3:69357800-69362800	Strong transcription	HUVEC	blood vessel
37	chr3:69357800-69370000	Weak transcription	Spleen	Spleen
38	chr3:69358200-69370000	Weak transcription	Fetal Thymus	thymus
39	chr3:69358400-69359800	Enhancers	Brain Cingulate Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links