Variant report

Variant	rs17615178
Chromosome Location	chr12:116844538-116844539
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:16)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:16 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr12:116842855..116845952-chr12:116869498..116873859,6	MCF-7	breast:
2	chr12:116714349..116716748-chr12:116843045..116844688,2	MCF-7	breast:
3	chr12:116844478..116845227-chr12:116863820..116864567,2	MCF-7	breast:
4	chr12:116828258..116830696-chr12:116843332..116846757,4	MCF-7	breast:
5	chr12:116843352..116845425-chr12:117039788..117041552,2	MCF-7	breast:
6	chr12:116844267..116846239-chr12:116938753..116941636,3	MCF-7	breast:
7	chr12:116843273..116846667-chr12:116853532..116856656,3	MCF-7	breast:
8	chr12:116718799..116720323-chr12:116844465..116846565,2	MCF-7	breast:
9	chr12:116826627..116830207-chr12:116841911..116847985,6	MCF-7	breast:
10	chr12:116843058..116845423-chr12:116858142..116861084,3	MCF-7	breast:
11	chr12:116830917..116832418-chr12:116843238..116846020,2	MCF-7	breast:
12	chr12:116836375..116838069-chr12:116843058..116845486,2	MCF-7	breast:
13	chr12:116828139..116828765-chr12:116844089..116844647,2	MCF-7	breast:
14	chr12:116842396..116845943-chr12:116861127..116865065,6	MCF-7	breast:
15	chr12:116843792..116845317-chr12:116930860..116933008,2	MCF-7	breast:
16	chr12:116827888..116828750-chr12:116844229..116845050,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000123066	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10774857	0.89[CHB][hapmap]
rs11068003	1.00[LWK][hapmap]
rs11068006	1.00[LWK][hapmap]
rs17581242	0.87[MEX][hapmap];1.00[YRI][hapmap]
rs7315837	0.89[CHB][hapmap];0.93[CHD][hapmap]
rs73400820	0.88[ASN][1000 genomes]
rs73400874	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17615178	SNORD50A	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:116840400-116844600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr12:116840400-116848800	Weak transcription	Primary B cells from peripheral blood	blood
3	chr12:116842000-116845200	Enhancers	Liver	Liver
4	chr12:116842400-116853400	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr12:116842600-116850000	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr12:116842800-116845200	Enhancers	HepG2	liver
7	chr12:116842800-116845400	Enhancers	Placenta	Placenta
8	chr12:116843000-116845200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr12:116843000-116845200	Enhancers	Adipose Nuclei	Adipose
10	chr12:116843000-116845400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr12:116843000-116845400	Enhancers	Fetal Intestine Large	intestine
12	chr12:116843000-116845400	Enhancers	Skeletal Muscle Male	skeletal muscle
13	chr12:116843000-116845600	Enhancers	NHDF-Ad	bronchial
14	chr12:116843200-116845000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr12:116843200-116845400	Enhancers	Fetal Intestine Small	intestine
16	chr12:116843200-116845400	Enhancers	Fetal Lung	lung
17	chr12:116843200-116845400	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr12:116843400-116844600	Enhancers	A549	lung
19	chr12:116843400-116845000	Enhancers	Fetal Muscle Trunk	muscle
20	chr12:116843400-116845200	Enhancers	Left Ventricle	heart
21	chr12:116843400-116845200	Enhancers	Psoas Muscle	Psoas
22	chr12:116843400-116845400	Enhancers	Primary neutrophils fromperipheralblood	blood
23	chr12:116843600-116848400	Weak transcription	Duodenum Mucosa	Duodenum
24	chr12:116843800-116845000	Enhancers	Right Atrium	heart
25	chr12:116843800-116845200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr12:116843800-116845200	Enhancers	Rectal Mucosa Donor 31	rectum
27	chr12:116843800-116845200	Enhancers	Hela-S3	cervix
28	chr12:116843800-116845400	Enhancers	NHLF	lung
29	chr12:116843800-116845600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr12:116843800-116848200	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr12:116844000-116845400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr12:116844000-116847600	Weak transcription	Stomach Smooth Muscle	stomach
33	chr12:116844000-116848600	Weak transcription	Aorta	Aorta
34	chr12:116844200-116844800	Enhancers	HSMM	muscle
35	chr12:116844200-116844800	Enhancers	NHEK	skin
36	chr12:116844200-116845000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr12:116844200-116845000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr12:116844200-116845000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr12:116844200-116845000	Enhancers	Muscle Satellite Cultured Cells	--
40	chr12:116844200-116845000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr12:116844200-116845000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
42	chr12:116844200-116845000	Enhancers	Osteobl	bone
43	chr12:116844200-116845200	Enhancers	Primary hematopoietic stem cells short term culture	blood
44	chr12:116844200-116845200	Enhancers	Fetal Muscle Leg	muscle
45	chr12:116844400-116844600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
46	chr12:116844400-116844800	Enhancers	Breast Myoepithelial Primary Cells	Breast
47	chr12:116844400-116844800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr12:116844400-116844800	Enhancers	Fetal Stomach	stomach
49	chr12:116844400-116844800	Enhancers	Placenta Amnion	Placenta Amnion
50	chr12:116844400-116845000	Enhancers	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links