Variant report

Variant	rs56226335
Chromosome Location	chr5:154143755-154143756
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:154039508..154042290-chr5:154142817..154144585,2	K562	blood:
2	chr5:154133078..154137845-chr5:154142563..154149366,9	MCF-7	breast:
3	chr5:154026946..154029914-chr5:154142078..154144700,2	K562	blood:
4	chr5:154034090..154035820-chr5:154141862..154143840,2	K562	blood:
5	chr5:154141399..154144040-chr5:154148555..154150698,2	MCF-7	breast:
6	chr5:154032703..154035820-chr5:154141862..154144774,3	K562	blood:

Variant related genes	Relation type
ENSG00000155506	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs11167702	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11948782	0.87[ASN][1000 genomes]
rs17641488	0.87[ASN][1000 genomes]
rs34951340	0.87[ASN][1000 genomes]
rs3867430	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55734017	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6886571	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][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	nsv1021153	chr5:154099869-154147970	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs56226335	LARP1	cis	Whole Blood	GTEx

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:154137800-154144000	Enhancers	Sigmoid Colon	Sigmoid Colon
2	chr5:154138200-154146000	Weak transcription	Placenta	Placenta
3	chr5:154138200-154151400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
4	chr5:154138200-154156000	Enhancers	Primary T cells fromperipheralblood	blood
5	chr5:154138400-154147800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
6	chr5:154138800-154150000	Weak transcription	HSMM	muscle
7	chr5:154139000-154147200	Weak transcription	NH-A	brain
8	chr5:154139000-154149800	Weak transcription	NHLF	lung
9	chr5:154139200-154145600	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr5:154139400-154145400	Weak transcription	Fetal Kidney	kidney
11	chr5:154139600-154148600	Weak transcription	Fetal Intestine Large	intestine
12	chr5:154139800-154148800	Weak transcription	Fetal Brain Male	brain
13	chr5:154140000-154145800	Weak transcription	Fetal Stomach	stomach
14	chr5:154140200-154149200	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr5:154140800-154146000	Weak transcription	NHDF-Ad	bronchial
16	chr5:154141000-154144400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr5:154141000-154144800	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr5:154141000-154145600	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr5:154141000-154145600	Weak transcription	Osteobl	bone
20	chr5:154141000-154145800	Weak transcription	Fetal Lung	lung
21	chr5:154141000-154148000	Enhancers	Primary T helper naive cells from peripheral blood	blood
22	chr5:154141000-154150000	Enhancers	Primary T helper cells fromperipheralblood	blood
23	chr5:154141200-154144400	Weak transcription	Spleen	Spleen
24	chr5:154141200-154144600	Weak transcription	Gastric	stomach
25	chr5:154141200-154144600	Weak transcription	Small Intestine	intestine
26	chr5:154141200-154144800	Weak transcription	Primary monocytes fromperipheralblood	blood
27	chr5:154141200-154145400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
28	chr5:154141200-154145600	Weak transcription	NHEK	skin
29	chr5:154141200-154145800	Weak transcription	HMEC	breast
30	chr5:154141200-154146800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
31	chr5:154141200-154148800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr5:154141200-154150600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
33	chr5:154141200-154151000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr5:154141400-154144400	Weak transcription	Fetal Thymus	thymus
35	chr5:154141400-154144600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr5:154141400-154144600	Weak transcription	Brain Anterior Caudate	brain
37	chr5:154141400-154144600	Weak transcription	Fetal Muscle Leg	muscle
38	chr5:154141400-154144600	Weak transcription	Thymus	Thymus
39	chr5:154141400-154145000	Weak transcription	HUES64 Cell Line	embryonic stem cell
40	chr5:154141400-154145800	Weak transcription	Fetal Brain Female	brain
41	chr5:154141400-154146000	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr5:154141400-154146400	Weak transcription	HUVEC	blood vessel
43	chr5:154141400-154146800	Enhancers	Primary T helper cells PMA-I stimulated	--
44	chr5:154141400-154148800	Weak transcription	Muscle Satellite Cultured Cells	--
45	chr5:154141400-154148800	Weak transcription	Colonic Mucosa	Colon
46	chr5:154141400-154152200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
47	chr5:154141600-154144600	Weak transcription	Brain Cingulate Gyrus	brain
48	chr5:154141600-154146000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr5:154141600-154146000	Weak transcription	Esophagus	oesophagus
50	chr5:154141600-154146000	Weak transcription	Fetal Muscle Trunk	muscle

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