Variant report

Variant	rs12414916
Chromosome Location	chr10:89787412-89787413
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:89786589..89788651-chr10:89799450..89801635,2	MCF-7	breast:
2	chr10:89787296..89787796-chr12:120638497..120639000,2	Hela-S3	cervix:

Variant related genes	Relation type
ENSG00000089157	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10159827	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11202635	1.00[CEU][hapmap];0.98[GIH][hapmap];0.82[MEX][hapmap];0.94[TSI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12240758	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12264326	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12412656	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12413500	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12781238	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1414892	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2078166	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4933464	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4934374	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs534182	0.81[GIH][hapmap]
rs559783	0.81[GIH][hapmap]
rs677422	0.81[GIH][hapmap]
rs7069904	1.00[YRI][hapmap]
rs72816127	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7907255	1.00[CEU][hapmap];0.95[GIH][hapmap];0.86[MEX][hapmap];0.97[TSI][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12414916	LIPN	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:89783200-89792200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr10:89784800-89789000	Enhancers	Primary neutrophils fromperipheralblood	blood
3	chr10:89786000-89787800	Weak transcription	Fetal Intestine Small	intestine
4	chr10:89786000-89789000	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr10:89786400-89787600	Enhancers	Monocytes-CD14+_RO01746	blood
6	chr10:89786800-89788400	Enhancers	Primary B cells from cord blood	blood
7	chr10:89786800-89788600	Enhancers	Primary B cells from peripheral blood	blood
8	chr10:89787000-89787600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr10:89787000-89787600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr10:89787000-89788800	Enhancers	Primary hematopoietic stem cells	blood
11	chr10:89787000-89789200	Enhancers	Primary T cells from cord blood	blood
12	chr10:89787000-89789200	Enhancers	Primary hematopoietic stem cells short term culture	blood
13	chr10:89787000-89789400	Enhancers	Dnd41	blood
14	chr10:89787200-89787600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr10:89787200-89787600	Enhancers	Osteobl	bone
16	chr10:89787200-89787800	Enhancers	Adipose Nuclei	Adipose
17	chr10:89787200-89788000	Flanking Active TSS	GM12878-XiMat	blood
18	chr10:89787200-89788000	Enhancers	NHDF-Ad	bronchial
19	chr10:89787200-89788600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
20	chr10:89787200-89788800	Enhancers	Primary T helper cells fromperipheralblood	blood
21	chr10:89787200-89789000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
22	chr10:89787400-89787600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr10:89787400-89787600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr10:89787400-89788000	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr10:89787400-89788000	Enhancers	Skeletal Muscle Male	skeletal muscle
26	chr10:89787400-89788200	Enhancers	Primary T cells fromperipheralblood	blood
27	chr10:89787400-89788200	Enhancers	Sigmoid Colon	Sigmoid Colon
28	chr10:89787400-89788800	Enhancers	Fetal Thymus	thymus
29	chr10:89787400-89789000	Enhancers	Primary T helper naive cells from peripheral blood	blood
30	chr10:89787400-89789000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
31	chr10:89787400-89789000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
32	chr10:89787400-89789000	Enhancers	Primary T helper cells PMA-I stimulated	--
33	chr10:89787400-89789000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
34	chr10:89787400-89789000	Enhancers	Primary T killer memory cells from peripheral blood	blood
35	chr10:89787400-89789000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
36	chr10:89787400-89789000	Enhancers	Pancreatic Islets	Pancreatic Islet
37	chr10:89787400-89789000	Enhancers	Rectal Mucosa Donor 31	rectum
38	chr10:89787400-89789200	Enhancers	Liver	Liver
39	chr10:89787400-89789400	Enhancers	Fetal Intestine Large	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links