Variant report

Variant	rs10143275
Chromosome Location	chr14:69141488-69141489
allele	A/G
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr14:69134172..69139010-chr14:69141375..69149578,10	MCF-7	breast:
2	chr14:69135213..69137998-chr14:69141394..69143507,2	K562	blood:
3	chr14:68923972..68925932-chr14:69141412..69143252,2	MCF-7	breast:
4	chr14:69141367..69143864-chr14:69145141..69147073,2	MCF-7	breast:
5	chr14:69139896..69142806-chr14:69144430..69145954,2	MCF-7	breast:
6	chr14:69131429..69134144-chr14:69139258..69141880,2	MCF-7	breast:
7	chr14:69125471..69127049-chr14:69139914..69141756,2	K562	blood:
8	chr14:69140612..69143897-chr14:69144932..69147672,3	K562	blood:

No data

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

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs8020743	0.87[EUR][1000 genomes]
rs8021168	0.90[CEU][hapmap];0.86[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3392590	chr14:69138099-69142797	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10143275	NCRNA00238	cis	cerebellum	SCAN
rs10143275	SIPA1L1	cis	parietal	SCAN
rs10143275	MAP3K9	cis	parietal	SCAN

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:69136200-69141600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr14:69136200-69145800	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr14:69136600-69141600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr14:69136800-69150000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr14:69137200-69141800	Weak transcription	NH-A	brain
6	chr14:69137400-69141600	Weak transcription	Osteobl	bone
7	chr14:69137800-69141800	Weak transcription	Esophagus	oesophagus
8	chr14:69137800-69141800	Weak transcription	HSMMtube	muscle
9	chr14:69137800-69148400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr14:69138000-69141600	Weak transcription	Spleen	Spleen
11	chr14:69138200-69141800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr14:69138200-69144400	Weak transcription	Small Intestine	intestine
13	chr14:69138600-69147800	Weak transcription	Brain Anterior Caudate	brain
14	chr14:69138800-69147200	Weak transcription	Lung	lung
15	chr14:69139200-69141800	Weak transcription	Fetal Thymus	thymus
16	chr14:69139200-69142000	Enhancers	GM12878-XiMat	blood
17	chr14:69139200-69150000	Weak transcription	Thymus	Thymus
18	chr14:69139600-69141600	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr14:69139800-69142000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr14:69139800-69142800	Weak transcription	Fetal Stomach	stomach
21	chr14:69139800-69143000	Weak transcription	Fetal Muscle Leg	muscle
22	chr14:69139800-69143000	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr14:69139800-69143200	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr14:69139800-69144200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr14:69139800-69144400	Weak transcription	Left Ventricle	heart
26	chr14:69139800-69144400	Weak transcription	Right Atrium	heart
27	chr14:69140000-69141800	Weak transcription	Adipose Nuclei	Adipose
28	chr14:69140000-69143800	Weak transcription	Primary B cells from cord blood	blood
29	chr14:69140000-69147200	Weak transcription	Stomach Smooth Muscle	stomach
30	chr14:69140200-69143000	Weak transcription	Stomach Mucosa	stomach
31	chr14:69140200-69143000	Weak transcription	HepG2	liver
32	chr14:69140400-69143000	Weak transcription	Duodenum Mucosa	Duodenum
33	chr14:69140400-69143200	Weak transcription	Gastric	stomach
34	chr14:69140400-69144600	Weak transcription	Right Ventricle	heart
35	chr14:69140400-69145800	Weak transcription	Liver	Liver
36	chr14:69140600-69146400	Weak transcription	Colon Smooth Muscle	Colon
37	chr14:69140600-69147400	Weak transcription	Rectal Smooth Muscle	rectum
38	chr14:69140800-69143000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr14:69140800-69146200	Weak transcription	Fetal Lung	lung
40	chr14:69141000-69141600	Weak transcription	Fetal Brain Male	brain
41	chr14:69141000-69142000	Weak transcription	Fetal Heart	heart
42	chr14:69141000-69145400	Weak transcription	Fetal Kidney	kidney
43	chr14:69141400-69141600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr14:69141400-69141800	Enhancers	Fetal Muscle Trunk	muscle
45	chr14:69141400-69142000	Enhancers	Pancreas	Pancrea
46	chr14:69141400-69142200	Enhancers	Aorta	Aorta
47	chr14:69141400-69142400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr14:69141400-69142400	Enhancers	Primary B cells from peripheral blood	blood
49	chr14:69141400-69142600	Enhancers	HSMM	muscle
50	chr14:69141400-69143000	Enhancers	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links