Variant report

Variant	rs6586116
Chromosome Location	chr10:89826130-89826131
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:89812551..89815010-chr10:89824717..89826401,2	MCF-7	breast:

Extended variants
information (count: 3 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs4934377	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[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	nsv831940	chr10:89811247-89989199	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1042027	chr10:89822721-89851993	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6586116	PTEN	cis	parietal	SCAN

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:89819400-89830400	Enhancers	Primary T cells from cord blood	blood
2	chr10:89819800-89826400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
3	chr10:89819800-89828200	Enhancers	Primary T cells fromperipheralblood	blood
4	chr10:89819800-89832800	Enhancers	Primary B cells from peripheral blood	blood
5	chr10:89820000-89826200	Enhancers	Primary T helper cells PMA-I stimulated	--
6	chr10:89820000-89826400	Enhancers	Primary B cells from cord blood	blood
7	chr10:89820800-89829400	Enhancers	Primary T helper cells fromperipheralblood	blood
8	chr10:89820800-89832400	Enhancers	Primary monocytes fromperipheralblood	blood
9	chr10:89821400-89828400	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr10:89821600-89826400	Enhancers	Adipose Nuclei	Adipose
11	chr10:89821600-89826400	Enhancers	Fetal Lung	lung
12	chr10:89821600-89828000	Enhancers	Primary hematopoietic stem cells	blood
13	chr10:89821600-89830800	Enhancers	Fetal Thymus	thymus
14	chr10:89822000-89828200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
15	chr10:89822000-89828400	Enhancers	Thymus	Thymus
16	chr10:89822000-89829600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
17	chr10:89822200-89827000	Enhancers	Primary T killer memory cells from peripheral blood	blood
18	chr10:89822200-89829600	Enhancers	Primary T helper naive cells from peripheral blood	blood
19	chr10:89822400-89826200	Enhancers	Duodenum Smooth Muscle	Duodenum
20	chr10:89822400-89826400	Enhancers	Fetal Intestine Small	intestine
21	chr10:89822800-89826600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
22	chr10:89823000-89835600	Weak transcription	Rectal Mucosa Donor 29	rectum
23	chr10:89823200-89828200	Enhancers	Dnd41	blood
24	chr10:89823600-89828200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
25	chr10:89823600-89829800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr10:89823800-89826400	Enhancers	Sigmoid Colon	Sigmoid Colon
27	chr10:89823800-89827800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
28	chr10:89824000-89827400	Flanking Active TSS	GM12878-XiMat	blood
29	chr10:89824000-89827600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
30	chr10:89824200-89827600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr10:89824400-89826600	Enhancers	Fetal Muscle Leg	muscle
32	chr10:89824400-89827200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr10:89824400-89827800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr10:89824600-89826400	Enhancers	Spleen	Spleen
35	chr10:89824600-89827800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
36	chr10:89824800-89827200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr10:89825000-89826200	Weak transcription	Psoas Muscle	Psoas
38	chr10:89825000-89828400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
39	chr10:89825000-89829400	Weak transcription	NHLF	lung
40	chr10:89825200-89826400	Weak transcription	Duodenum Mucosa	Duodenum
41	chr10:89825200-89827400	Weak transcription	Left Ventricle	heart
42	chr10:89825200-89830800	Weak transcription	Lung	lung
43	chr10:89825200-89831600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr10:89825200-89835000	Weak transcription	Skeletal Muscle Male	skeletal muscle
45	chr10:89825400-89826200	Enhancers	ES-I3 Cell Line	embryonic stem cell
46	chr10:89825400-89827000	Weak transcription	Stomach Mucosa	stomach
47	chr10:89825600-89826200	Weak transcription	Right Atrium	heart
48	chr10:89825600-89828200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
49	chr10:89825600-89829400	Weak transcription	NHDF-Ad	bronchial
50	chr10:89825800-89826200	Enhancers	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links