Variant report

Variant	rs286596
Chromosome Location	chr5:154346984-154346985
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:154236951..154238944-chr5:154345833..154349110,3	MCF-7	breast:
2	chr5:154342000..154345250-chr5:154346858..154348980,3	MCF-7	breast:
3	chr5:154345809..154348149-chr5:154351585..154354397,2	K562	blood:
4	chr5:154346758..154347900-chr5:154407299..154408191,5	MCF-7	breast:
5	chr5:154346229..154348677-chr5:154350514..154352609,2	K562	blood:

Variant related genes	Relation type
ENSG00000155508	Chromatin interaction
ENSG00000170271	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11740031	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11740589	0.84[CEU][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];0.91[TSI][hapmap];0.81[AMR][1000 genomes]
rs11743080	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs158133	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs176273	0.80[CEU][hapmap]
rs286595	1.00[CEU][hapmap];0.97[GIH][hapmap];0.89[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286622	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs348735	0.81[GIH][hapmap]
rs3853757	0.96[CEU][hapmap]
rs62382248	1.00[ASN][1000 genomes]
rs6877876	1.00[ASN][1000 genomes]
rs7328	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.95[TSI][hapmap];0.84[YRI][hapmap];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs903837	0.96[CEU][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.94[MEX][hapmap];0.87[MKK][hapmap];0.98[TSI][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs286596	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	chr5:154321800-154352200	Weak transcription	Right Ventricle	heart
2	chr5:154322000-154350000	Weak transcription	Fetal Brain Male	brain
3	chr5:154322400-154349600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr5:154322600-154364600	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr5:154327600-154351600	Weak transcription	Fetal Heart	heart
6	chr5:154329800-154347200	Weak transcription	Psoas Muscle	Psoas
7	chr5:154334800-154347200	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr5:154335600-154350600	Strong transcription	Primary T helper cells fromperipheralblood	blood
9	chr5:154335800-154348000	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr5:154335800-154348400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr5:154335800-154349000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr5:154336000-154349000	Strong transcription	Monocytes-CD14+_RO01746	blood
13	chr5:154336000-154349400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr5:154336200-154348800	Strong transcription	Fetal Intestine Large	intestine
15	chr5:154336200-154349000	Strong transcription	Primary T cells fromperipheralblood	blood
16	chr5:154336200-154349400	Strong transcription	Primary T helper cells PMA-I stimulated	--
17	chr5:154336600-154348800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr5:154336800-154350600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr5:154337600-154348000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr5:154338400-154351800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
21	chr5:154339000-154347800	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr5:154339200-154350400	Weak transcription	Esophagus	oesophagus
23	chr5:154339200-154355400	Weak transcription	Gastric	stomach
24	chr5:154339200-154361200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr5:154339400-154350400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr5:154339400-154355400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr5:154339400-154355400	Weak transcription	Pancreas	Pancrea
28	chr5:154339400-154355600	Weak transcription	Lung	lung
29	chr5:154339600-154349800	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr5:154339600-154356200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr5:154339800-154347200	Weak transcription	Brain Substantia Nigra	brain
32	chr5:154340200-154357200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr5:154340400-154347200	Weak transcription	HSMM	muscle
34	chr5:154341400-154366600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr5:154341600-154347200	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr5:154341600-154348200	Weak transcription	Left Ventricle	heart
37	chr5:154341600-154349600	Weak transcription	HUES6 Cell Line	embryonic stem cell
38	chr5:154341800-154347200	Weak transcription	Adipose Nuclei	Adipose
39	chr5:154342000-154348000	Weak transcription	Fetal Kidney	kidney
40	chr5:154342200-154347400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr5:154342200-154347600	Weak transcription	HepG2	liver
42	chr5:154342200-154347800	Weak transcription	NHEK	skin
43	chr5:154342400-154347200	Weak transcription	Brain Angular Gyrus	brain
44	chr5:154342400-154347600	Weak transcription	Osteobl	bone
45	chr5:154342400-154349400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr5:154342600-154347600	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr5:154342600-154348000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr5:154342800-154363400	Weak transcription	Brain Germinal Matrix	brain
49	chr5:154343000-154348800	Strong transcription	Primary T cells from cord blood	blood
50	chr5:154343400-154356800	Weak transcription	Hela-S3	cervix

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