Variant report

Variant	rs11540871
Chromosome Location	chr14:65414976-65414977
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:65411390..65415173-chr14:65438187..65441044,4	MCF-7	breast:
2	chr14:65380997..65384717-chr14:65414191..65417570,3	MCF-7	breast:
3	chr14:65409377..65412312-chr14:65414249..65416827,3	K562	blood:
4	chr14:65408459..65411716-chr14:65412606..65416966,4	MCF-7	breast:
5	chr14:65409377..65412312-chr14:65414249..65416590,2	K562	blood:

Variant related genes	Relation type
ENSG00000139998	Chromatin interaction
ENSG00000258289	Chromatin interaction
ENSG00000125954	Chromatin interaction
ENSG00000176153	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10121	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17880145	0.81[AFR][1000 genomes]
rs17883073	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1957416	0.80[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs28493109	0.89[EUR][1000 genomes]
rs57319601	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57674166	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61012404	0.86[ASN][1000 genomes]
rs61538903	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62621845	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7144637	0.86[ASN][1000 genomes]
rs73279812	0.86[ASN][1000 genomes]
rs73279816	0.86[ASN][1000 genomes]
rs73279823	0.86[ASN][1000 genomes]
rs73279833	0.86[ASN][1000 genomes]
rs73279834	0.86[ASN][1000 genomes]
rs73279839	0.86[ASN][1000 genomes]
rs73281764	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73281765	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8019346	0.86[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11540871	RAB15	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:65382400-65417400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr14:65382400-65420000	Weak transcription	Fetal Brain Male	brain
3	chr14:65383000-65419400	Weak transcription	K562	blood
4	chr14:65393400-65422200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr14:65396000-65417800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr14:65399000-65428000	Weak transcription	NHLF	lung
7	chr14:65400000-65417000	Weak transcription	Colon Smooth Muscle	Colon
8	chr14:65400400-65415200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr14:65401400-65432200	Weak transcription	HUVEC	blood vessel
10	chr14:65401600-65435000	Weak transcription	NH-A	brain
11	chr14:65402400-65415000	Weak transcription	Osteobl	bone
12	chr14:65404400-65415000	Weak transcription	Brain Hippocampus Middle	brain
13	chr14:65404400-65416600	Weak transcription	Psoas Muscle	Psoas
14	chr14:65404400-65419600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr14:65404600-65415600	Weak transcription	Fetal Heart	heart
16	chr14:65404600-65418200	Weak transcription	Brain Angular Gyrus	brain
17	chr14:65404600-65419600	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr14:65404800-65415000	Weak transcription	Ovary	ovary
19	chr14:65405000-65417200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
20	chr14:65405800-65416200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr14:65406400-65415600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr14:65406600-65438000	Weak transcription	Fetal Kidney	kidney
23	chr14:65407400-65415200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr14:65407800-65417400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr14:65408400-65415400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr14:65409200-65416000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr14:65409600-65428400	Strong transcription	Fetal Stomach	stomach
28	chr14:65409800-65415200	Enhancers	Primary neutrophils fromperipheralblood	blood
29	chr14:65410000-65417000	Weak transcription	Rectal Smooth Muscle	rectum
30	chr14:65410000-65418200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr14:65410200-65425200	Weak transcription	HMEC	breast
32	chr14:65410400-65415400	Strong transcription	Cortex derived primary cultured neurospheres	brain
33	chr14:65410400-65418200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr14:65410400-65419200	Strong transcription	Lung	lung
35	chr14:65410400-65425400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr14:65410600-65421600	Weak transcription	Pancreas	Pancrea
37	chr14:65411000-65417600	Weak transcription	Rectal Mucosa Donor 29	rectum
38	chr14:65411000-65423200	Weak transcription	NHEK	skin
39	chr14:65411000-65437200	Weak transcription	Fetal Lung	lung
40	chr14:65411200-65415000	Weak transcription	Primary B cells from cord blood	blood
41	chr14:65411200-65415000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr14:65411200-65425400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
43	chr14:65411200-65427600	Weak transcription	A549	lung
44	chr14:65411200-65435000	Weak transcription	Primary hematopoietic stem cells	blood
45	chr14:65411400-65415200	Weak transcription	Esophagus	oesophagus
46	chr14:65411400-65418600	Weak transcription	GM12878-XiMat	blood
47	chr14:65411400-65421400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
48	chr14:65411400-65425200	Weak transcription	Stomach Mucosa	stomach
49	chr14:65411400-65435000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr14:65411400-65438000	Weak transcription	Small Intestine	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links