Variant report

Variant	rs57542130
Chromosome Location	chr2:33754336-33754337
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr2:33753413-33757052	Raji	blood:	n/a	n/a

Variant related genes	Relation type
RASGRP3	TF binding region

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10186362	0.96[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11884210	0.86[EUR][1000 genomes]
rs12467474	0.86[EUR][1000 genomes]
rs12468045	0.86[EUR][1000 genomes]
rs12470399	0.88[EUR][1000 genomes]
rs12476217	0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12476533	0.84[EUR][1000 genomes]
rs12478596	0.88[EUR][1000 genomes]
rs12478742	0.88[EUR][1000 genomes]
rs13404493	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17013237	0.95[EUR][1000 genomes]
rs17013312	0.86[EUR][1000 genomes]
rs4491711	0.86[EUR][1000 genomes]
rs4491712	0.86[EUR][1000 genomes]
rs55834207	0.87[EUR][1000 genomes]
rs7574183	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs57542130	RASGRP3	cis	Thyroid	GTEx

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:33710400-33775400	Weak transcription	Pancreas	Pancrea
2	chr2:33735400-33761800	Weak transcription	Spleen	Spleen
3	chr2:33735800-33754800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr2:33737600-33760800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr2:33738600-33782800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr2:33738800-33777200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr2:33739200-33761800	Weak transcription	Fetal Muscle Trunk	muscle
8	chr2:33740800-33754600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr2:33740800-33790000	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr2:33744800-33758200	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr2:33747200-33755000	Weak transcription	Fetal Muscle Leg	muscle
12	chr2:33747200-33757600	Weak transcription	Psoas Muscle	Psoas
13	chr2:33747400-33761800	Weak transcription	Aorta	Aorta
14	chr2:33747800-33754600	Weak transcription	Osteobl	bone
15	chr2:33747800-33756600	Weak transcription	Right Ventricle	heart
16	chr2:33747800-33780200	Weak transcription	Brain Anterior Caudate	brain
17	chr2:33748000-33754600	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr2:33748000-33761800	Weak transcription	Fetal Stomach	stomach
19	chr2:33748000-33774400	Weak transcription	Stomach Smooth Muscle	stomach
20	chr2:33748000-33790400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr2:33748200-33780200	Weak transcription	Brain Angular Gyrus	brain
22	chr2:33748400-33754600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr2:33748400-33755000	Weak transcription	Fetal Heart	heart
24	chr2:33750600-33754400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr2:33750800-33755400	Genic enhancers	Primary B cells from peripheral blood	blood
26	chr2:33751200-33754800	Strong transcription	Skeletal Muscle Male	skeletal muscle
27	chr2:33751200-33755400	Weak transcription	Placenta	Placenta
28	chr2:33751600-33754600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr2:33751600-33755600	Strong transcription	Skeletal Muscle Female	skeletal muscle
30	chr2:33751800-33754600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr2:33751800-33754600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr2:33751800-33755000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr2:33752600-33754600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr2:33752600-33755400	Weak transcription	Duodenum Mucosa	Duodenum
35	chr2:33752800-33757800	Enhancers	NHDF-Ad	bronchial
36	chr2:33753000-33755000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr2:33753000-33757000	Weak transcription	Lung	lung
38	chr2:33753000-33760600	Weak transcription	Adipose Nuclei	Adipose
39	chr2:33753200-33755200	Enhancers	Primary B cells from cord blood	blood
40	chr2:33753200-33756400	Weak transcription	Brain Substantia Nigra	brain
41	chr2:33753400-33757800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr2:33753800-33754600	Genic enhancers	GM12878-XiMat	blood
43	chr2:33754200-33754800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr2:33754200-33756400	Weak transcription	Brain Hippocampus Middle	brain
45	chr2:33754200-33756400	Weak transcription	Left Ventricle	heart
46	chr2:33754200-33758000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr2:33754200-33760400	Weak transcription	Brain Cingulate Gyrus	brain
48	chr2:33754200-33761800	Weak transcription	Primary hematopoietic stem cells	blood

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