Variant report

Variant	rs11740031
Chromosome Location	chr5:154257236-154257237
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:154236696..154239657-chr5:154255022..154258392,4	MCF-7	breast:
2	chr5:154256944..154260356-chr5:154260971..154266243,8	K562	blood:

Variant related genes	Relation type
ENSG00000155508	Chromatin interaction
ENSG00000170271	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11740589	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11743080	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs158133	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286595	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286596	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286622	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3853757	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs62382248	1.00[ASN][1000 genomes]
rs6877876	1.00[ASN][1000 genomes]
rs7328	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs903837	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11740031	LARP1	cis	Whole Blood	GTEx

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:154239600-154263800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr5:154240600-154264800	Weak transcription	Stomach Mucosa	stomach
3	chr5:154242000-154257600	Strong transcription	Fetal Thymus	thymus
4	chr5:154242400-154257600	Strong transcription	Cortex derived primary cultured neurospheres	brain
5	chr5:154242400-154257600	Strong transcription	Liver	Liver
6	chr5:154242800-154257600	Strong transcription	Rectal Mucosa Donor 29	rectum
7	chr5:154243200-154257600	Strong transcription	Primary T cells fromperipheralblood	blood
8	chr5:154243800-154257400	Strong transcription	Dnd41	blood
9	chr5:154244600-154257600	Strong transcription	Primary B cells from peripheral blood	blood
10	chr5:154248000-154257400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr5:154248200-154257400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr5:154248600-154257600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr5:154248600-154257800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr5:154248600-154267600	Weak transcription	Right Atrium	heart
15	chr5:154249200-154257400	Strong transcription	Fetal Muscle Trunk	muscle
16	chr5:154249600-154257400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr5:154249600-154257600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr5:154249600-154257600	Strong transcription	Fetal Intestine Large	intestine
19	chr5:154249600-154257800	Strong transcription	Primary B cells from cord blood	blood
20	chr5:154249600-154259000	Strong transcription	HSMM	muscle
21	chr5:154250000-154257400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr5:154250200-154257400	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr5:154250200-154257400	Strong transcription	Stomach Smooth Muscle	stomach
24	chr5:154250200-154257400	Strong transcription	HSMMtube	muscle
25	chr5:154250200-154257600	Strong transcription	Duodenum Mucosa	Duodenum
26	chr5:154250200-154257600	Strong transcription	Sigmoid Colon	Sigmoid Colon
27	chr5:154252200-154264200	Weak transcription	Fetal Heart	heart
28	chr5:154253800-154258000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr5:154254800-154257400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr5:154255200-154257800	Strong transcription	Brain Angular Gyrus	brain
31	chr5:154255200-154257800	Weak transcription	Esophagus	oesophagus
32	chr5:154255200-154258400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr5:154255200-154258400	Weak transcription	Aorta	Aorta
34	chr5:154255200-154258600	Weak transcription	Gastric	stomach
35	chr5:154255400-154257600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr5:154255400-154257600	Strong transcription	Brain Inferior Temporal Lobe	brain
37	chr5:154255400-154258200	Weak transcription	Colonic Mucosa	Colon
38	chr5:154255400-154258400	Weak transcription	Ovary	ovary
39	chr5:154255400-154258400	Weak transcription	Pancreas	Pancrea
40	chr5:154255600-154258200	Weak transcription	Rectal Smooth Muscle	rectum
41	chr5:154255600-154258200	Weak transcription	Right Ventricle	heart
42	chr5:154255600-154258400	Weak transcription	Spleen	Spleen
43	chr5:154255600-154261000	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr5:154255600-154266000	Weak transcription	NHLF	lung
45	chr5:154255800-154257400	Weak transcription	Hela-S3	cervix
46	chr5:154255800-154258200	Weak transcription	H9 Cell Line	embryonic stem cell
47	chr5:154255800-154258200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr5:154255800-154258400	Weak transcription	Left Ventricle	heart
49	chr5:154255800-154264200	Weak transcription	Fetal Brain Male	brain
50	chr5:154255800-154265000	Weak transcription	Brain Substantia Nigra	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links