Variant report

Variant	rs10838642
Chromosome Location	chr11:47013480-47013481
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 5 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs7123635	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs7126981	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9919642	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1805201	chr11:46971012-47063429	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	esv1819852	chr11:46971012-47064542	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10838642	LRP4	cis	Nerve Tibial	GTEx
rs10838642	CTD-2384B9.1	cis	Nerve Tibial	GTEx
rs10838642	LRP4-AS1	cis	Nerve Tibial	GTEx
rs10838642	ARFGAP2	cis	brain	BrainEAC

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:46980600-47014000	Weak transcription	Aorta	Aorta
2	chr11:46980600-47021000	Weak transcription	Ovary	ovary
3	chr11:46980600-47026000	Weak transcription	HSMM	muscle
4	chr11:46981200-47023400	Weak transcription	Primary B cells from peripheral blood	blood
5	chr11:46983000-47024000	Weak transcription	Primary B cells from cord blood	blood
6	chr11:46989200-47026000	Weak transcription	Dnd41	blood
7	chr11:46994000-47026000	Weak transcription	Colonic Mucosa	Colon
8	chr11:46994200-47021000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr11:46994400-47014800	Weak transcription	Esophagus	oesophagus
10	chr11:46996000-47025800	Weak transcription	Fetal Muscle Trunk	muscle
11	chr11:46998800-47023200	Weak transcription	Fetal Brain Male	brain
12	chr11:46999000-47019400	Weak transcription	Fetal Stomach	stomach
13	chr11:46999600-47023600	Weak transcription	Stomach Smooth Muscle	stomach
14	chr11:47000000-47024600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr11:47000200-47025200	Weak transcription	NH-A	brain
16	chr11:47000200-47026400	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr11:47000400-47023400	Weak transcription	Osteobl	bone
18	chr11:47000400-47024600	Weak transcription	Brain Cingulate Gyrus	brain
19	chr11:47000400-47026600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr11:47002000-47017600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr11:47003400-47015600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr11:47003400-47021000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr11:47003400-47032800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr11:47003600-47014800	Weak transcription	Primary T helper cells fromperipheralblood	blood
25	chr11:47003600-47015000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
26	chr11:47003600-47024600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr11:47005400-47026200	Weak transcription	Fetal Intestine Large	intestine
28	chr11:47005800-47019600	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr11:47005800-47024000	Weak transcription	K562	blood
30	chr11:47005800-47025800	Weak transcription	HSMMtube	muscle
31	chr11:47006000-47023600	Weak transcription	Colon Smooth Muscle	Colon
32	chr11:47006000-47026400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr11:47006800-47023400	Weak transcription	Rectal Smooth Muscle	rectum
34	chr11:47006800-47023600	Weak transcription	NHLF	lung
35	chr11:47006800-47026000	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr11:47007000-47024000	Weak transcription	Small Intestine	intestine
37	chr11:47007200-47023800	Weak transcription	Fetal Intestine Small	intestine
38	chr11:47007200-47024000	Weak transcription	Fetal Thymus	thymus
39	chr11:47007400-47026000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr11:47007600-47013800	Weak transcription	Stomach Mucosa	stomach
41	chr11:47009000-47020600	Weak transcription	Lung	lung
42	chr11:47009600-47019000	Weak transcription	Primary T cells from cord blood	blood
43	chr11:47009600-47023400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr11:47009800-47023600	Weak transcription	Brain Hippocampus Middle	brain
45	chr11:47011000-47024600	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr11:47011400-47023400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr11:47011600-47013600	Weak transcription	Fetal Kidney	kidney
48	chr11:47011600-47021000	Weak transcription	Primary hematopoietic stem cells	blood
49	chr11:47011600-47024600	Weak transcription	Adipose Nuclei	Adipose
50	chr11:47011800-47015800	Weak transcription	Fetal Muscle Leg	muscle

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