m6A Target Gene Information

General Information of the m6A Target Gene (ID: M6ATAR01621)

Target Name	Lymphocyte function-associated antigen 3 (CD58)
Synonyms	Ag3; Surface glycoprotein LFA-3; CD antigen CD58 Click to Show/Hide
Gene Name	CD58
Chromosomal Location	1p13.1
Function	Ligand of the T-lymphocyte CD2 glycoprotein. This interaction is important in mediating thymocyte interactions with thymic epithelial cells, antigen-independent and -dependent interactions of T-lymphocytes with target cells and antigen-presenting cells and the T-lymphocyte rosetting with erythrocytes. In addition, the LFA-3/CD2 interaction may prime response by both the CD2+ and LFA-3+ cells. Click to Show/Hide
Gene ID	965
Uniprot ID	LFA3_HUMAN
HGNC ID	HGNC:1688
KEGG ID	hsa:965

Full List of Crosstalk(s) between m6A Modification and Epigenetic Regulation Related to This Regulator

Histone modification

m6A Regulator: RNA demethylase ALKBH5 (ALKBH5)

Regulator Info

In total 2 item(s) under this m6A regulator
Crosstalk ID: M6ACROT03131		Crosstalk Info
Epigenetic Regulator	Histone acetyltransferase p300 (P300)
Regulated Target	Histone H3 lysine 27 acetylation (H3K27ac)
Crosstalk relationship	Histone modification → m6A
Disease	Gastric cancer	Disease Info
Crosstalk ID: M6ACROT06019		Crosstalk Info
Epigenetic Regulator	CREB-binding protein (CREBBP)
Regulated Target	Histone H3 lysine 27 acetylation (H3K27ac)
Crosstalk relationship	Histone modification → m6A
Disease	Gastric cancer	Disease Info

RNA Modification Sequencing Data Associated with the Target (ID: M6ATAR01621)

Lymphocyte function-associated antigen 3 (CD58)

Adenosine-to-Inosine editing (A-to-I)

In total 3 m6A sequence/site(s) in this target gene
mod ID: A2ISITE010065		Click to Show/Hide the Full List
mod site	chr1:116532150-116532151:-		[2]
Sequence	AAACACTGCTTCCTGCCACCAGGGCTGAAGACGCGAGCCTG
Transcript ID List	ENST00000464088.5; ENST00000526981.1; ENST00000369487.3; ENST00000457047.6; ENST00000369489.10
External Link	RMBase: RNA-editing_site_8071
mod ID: A2ISITE010066		Click to Show/Hide the Full List
mod site	chr1:116543705-116543706:-		[3]
Sequence	GGTCTCAAACTCCTGAGCTCAGGTGATCCACCCGCCTCAGC
Transcript ID List	ENST00000457047.6; ENST00000369489.10; ENST00000369487.3; ENST00000464088.5; ENST00000526981.1
External Link	RMBase: RNA-editing_site_8072
mod ID: A2ISITE010067		Click to Show/Hide the Full List
mod site	chr1:116557648-116557649:-		[4]
Sequence	AAGGAAGGGGAGGGAAGGAGGGAGAGAGAGAGGGAAAGAAA
Transcript ID List	ENST00000369489.10; ENST00000457047.6; ENST00000464088.5; ENST00000369487.3
External Link	RMBase: RNA-editing_site_8073

N6-methyladenosine (m6A)

In total 33 m6A sequence/site(s) in this target gene
mod ID: M6ASITE045155		Click to Show/Hide the Full List
mod site	chr1:116514658-116514659:-
Sequence	GAAATACCCACTAACAAAGAACAAGCATTAGTTTTGGCTGT
Motif Score	2.951386905
Cell/Tissue List	HEK293T
Seq Type List	MeRIP-seq
Transcript ID List	ENST00000369489.10
External Link	RMBase: m6A_site_47297
mod ID: M6ASITE045156		Click to Show/Hide the Full List
mod site	chr1:116514719-116514720:-
Sequence	TTGAGTATTACAATTTTTGAACAACTGTTGGAAATGTAACT
Motif Score	2.951386905
Cell/Tissue List	HEK293T
Seq Type List	MeRIP-seq
Transcript ID List	ENST00000369489.10
External Link	RMBase: m6A_site_47298
mod ID: M6ASITE045157		Click to Show/Hide the Full List
mod site	chr1:116514730-116514731:-		[5]
Sequence	TGATTTCTCATTTGAGTATTACAATTTTTGAACAACTGTTG
Motif Score	2.07285119
Cell/Tissue List	hESC-HEK293T
Seq Type List	MAZTER-seq
Transcript ID List	ENST00000369489.10
External Link	RMBase: m6A_site_47299
mod ID: M6ASITE045158		Click to Show/Hide the Full List
mod site	chr1:116514764-116514765:-
Sequence	ATAACTAAATTATTTTAAAAACTAAAAAGCCATCTGATTTC
Motif Score	2.627720238
Cell/Tissue List	HEK293T
Seq Type List	MeRIP-seq
Transcript ID List	ENST00000464088.5; ENST00000369489.10
External Link	RMBase: m6A_site_47300
mod ID: M6ASITE045159		Click to Show/Hide the Full List
mod site	chr1:116514792-116514793:-		[5]
Sequence	ATTGGTAACAGAAGATGAAGACAACAGCATAACTAAATTAT
Motif Score	2.897386905
Cell/Tissue List	HEK293T; hESC-HEK293T
Seq Type List	MeRIP-seq; MAZTER-seq
Transcript ID List	ENST00000369489.10; ENST00000464088.5
External Link	RMBase: m6A_site_47301
mod ID: M6ASITE045160		Click to Show/Hide the Full List
mod site	chr1:116516746-116516747:-		[6]
Sequence	ATGAGGGTAAGGGCTGAGCAACCAACGCAGAGGAATTGGAG
Motif Score	2.153267857
Cell/Tissue List	CD8T
Seq Type List	m6A-CLIP/IP
Transcript ID List	ENST00000464088.5; ENST00000369489.10
External Link	RMBase: m6A_site_47302
mod ID: M6ASITE045161		Click to Show/Hide the Full List
mod site	chr1:116521792-116521793:-		[7]
Sequence	TTTTAGACATTTGAAAAGAAACAAAAACTTTTTTGCTTTAC
Motif Score	2.20572619
Cell/Tissue List	Huh7
Seq Type List	MeRIP-seq
Transcript ID List	ENST00000457047.6; ENST00000369487.3; ENST00000464088.5; ENST00000369489.10; ENST00000526981.1
External Link	RMBase: m6A_site_47303
mod ID: M6ASITE045162		Click to Show/Hide the Full List
mod site	chr1:116521806-116521807:-		[7]
Sequence	AATAAAGTTTGAAATTTTAGACATTTGAAAAGAAACAAAAA
Motif Score	2.897386905
Cell/Tissue List	Huh7
Seq Type List	MeRIP-seq
Transcript ID List	ENST00000457047.6; ENST00000464088.5; ENST00000369489.10; ENST00000526981.1; ENST00000369487.3
External Link	RMBase: m6A_site_47304
mod ID: M6ASITE045163		Click to Show/Hide the Full List
mod site	chr1:116521870-116521871:-		[7]
Sequence	TAAAACAAAATAGTTTGAAAACTTGCATTGTTTTCCAAAGG
Motif Score	2.627720238
Cell/Tissue List	Huh7
Seq Type List	MeRIP-seq
Transcript ID List	ENST00000369489.10; ENST00000369487.3; ENST00000457047.6; ENST00000526981.1; ENST00000464088.5
External Link	RMBase: m6A_site_47305
mod ID: M6ASITE045164		Click to Show/Hide the Full List
mod site	chr1:116521886-116521887:-		[7]
Sequence	TGGTATGTATGCTTTTTAAAACAAAATAGTTTGAAAACTTG
Motif Score	2.20572619
Cell/Tissue List	Huh7
Seq Type List	MeRIP-seq
Transcript ID List	ENST00000464088.5; ENST00000369487.3; ENST00000526981.1; ENST00000369489.10; ENST00000457047.6
External Link	RMBase: m6A_site_47306
mod ID: M6ASITE045165		Click to Show/Hide the Full List
mod site	chr1:116521972-116521973:-		[8]
Sequence	TTTTTTATAGGTCATTCAAGACACAGATATGCACTTATACC
Motif Score	2.897386905
Cell/Tissue List	HEK293T; HeLa; GM12878; LCLs; Huh7; iSLK
Seq Type List	MeRIP-seq; m6A-seq
Transcript ID List	ENST00000464088.5; ENST00000369489.10; ENST00000369487.3; ENST00000526981.1; ENST00000457047.6
External Link	RMBase: m6A_site_47307
mod ID: M6ASITE045166		Click to Show/Hide the Full List
mod site	chr1:116532968-116532969:-		[9]
Sequence	GAAATTAATCCCAACAAGGAACCCAGCCAGCCGGCGGAATG
Motif Score	2.930744048
Cell/Tissue List	GM12878; peripheral-blood
Seq Type List	m6A-seq
Transcript ID List	ENST00000526981.1; ENST00000457047.6; ENST00000464088.5; ENST00000319092.5; ENST00000369489.10; ENST00000369487.3
External Link	RMBase: m6A_site_47308
mod ID: M6ASITE045167		Click to Show/Hide the Full List
mod site	chr1:116533109-116533110:-		[10]
Sequence	GACACTTTTTCCGTGAGCGGACCACAGGCTGTGCTGTACTT
Motif Score	3.622404762
Cell/Tissue List	HeLa; HEK293T; U2OS; GM12878; LCLs; Huh7; peripheral-blood
Seq Type List	m6A-seq; MeRIP-seq
Transcript ID List	ENST00000369489.10; ENST00000369487.3; ENST00000464088.5; ENST00000526981.1; ENST00000457047.6; ENST00000319092.5
External Link	RMBase: m6A_site_47309
mod ID: M6ASITE045168		Click to Show/Hide the Full List
mod site	chr1:116533128-116533129:-		[10]
Sequence	GCCTCTGATTTTGAAATTGGACACTTTTTCCGTGAGCGGAC
Motif Score	3.643047619
Cell/Tissue List	HeLa; HEK293T; U2OS; GM12878; peripheral-blood
Seq Type List	m6A-seq; MeRIP-seq
Transcript ID List	ENST00000369489.10; ENST00000457047.6; ENST00000464088.5; ENST00000526981.1; ENST00000319092.5; ENST00000369487.3
External Link	RMBase: m6A_site_47310
mod ID: M6ASITE045169		Click to Show/Hide the Full List
mod site	chr1:116533242-116533243:-		[10]
Sequence	ACTGTTAGAACAATTACCAAACAAGTATCCAATGAGTCATT
Motif Score	2.20572619
Cell/Tissue List	HeLa; HEK293T; GM12878; LCLs; Huh7
Seq Type List	m6A-seq; MeRIP-seq
Transcript ID List	ENST00000319092.5; ENST00000369487.3; ENST00000464088.5; ENST00000526981.1; ENST00000369489.10; ENST00000457047.6
External Link	RMBase: m6A_site_47311
mod ID: M6ASITE045170		Click to Show/Hide the Full List
mod site	chr1:116533253-116533254:-		[10]
Sequence	AGGGTCCAGGCACTGTTAGAACAATTACCAAACAAGTATCC
Motif Score	2.951386905
Cell/Tissue List	HeLa; HEK293T; GM12878; LCLs; Huh7
Seq Type List	m6A-seq; MeRIP-seq
Transcript ID List	ENST00000319092.5; ENST00000369489.10; ENST00000526981.1; ENST00000369487.3; ENST00000464088.5; ENST00000457047.6
External Link	RMBase: m6A_site_47312
mod ID: M6ASITE045171		Click to Show/Hide the Full List
mod site	chr1:116533298-116533299:-		[10]
Sequence	GAAAGAATGTTACTGTCAAAACCATCAAGAAAAAGCAGAAG
Motif Score	2.185083333
Cell/Tissue List	HeLa; HEK293T; GM12878; LCLs; Huh7
Seq Type List	m6A-seq; MeRIP-seq
Transcript ID List	ENST00000457047.6; ENST00000464088.5; ENST00000319092.5; ENST00000369487.3; ENST00000369489.10; ENST00000526981.1
External Link	RMBase: m6A_site_47313
mod ID: M6ASITE045172		Click to Show/Hide the Full List
mod site	chr1:116533351-116533352:-		[10]
Sequence	TGCAGGTCCTGAGATCATGGACTGCGATGGGTGTACTATTG
Motif Score	4.065041667
Cell/Tissue List	HeLa; HEK293T; GM12878; Huh7
Seq Type List	m6A-seq; MeRIP-seq
Transcript ID List	ENST00000319092.5; ENST00000457047.6; ENST00000369489.10; ENST00000464088.5; ENST00000369487.3; ENST00000526981.1
External Link	RMBase: m6A_site_47314
mod ID: M6ASITE045173		Click to Show/Hide the Full List
mod site	chr1:116533398-116533399:-		[10]
Sequence	ACCTGCAAGATGAAATCAGAACCAGATAAGGCTGATCCCTT
Motif Score	2.930744048
Cell/Tissue List	HeLa; HEK293T; GM12878; Huh7
Seq Type List	m6A-seq; MeRIP-seq
Transcript ID List	ENST00000369487.3; ENST00000526981.1; ENST00000369489.10; ENST00000457047.6; ENST00000319092.5; ENST00000464088.5
External Link	RMBase: m6A_site_47315
mod ID: M6ASITE045174		Click to Show/Hide the Full List
mod site	chr1:116533418-116533419:-		[7]
Sequence	CCAACTCAGTCCTGACAAAAACCTGCAAGATGAAATCAGAA
Motif Score	2.185083333
Cell/Tissue List	HEK293T; Huh7
Seq Type List	MeRIP-seq
Transcript ID List	ENST00000319092.5; ENST00000457047.6; ENST00000526981.1; ENST00000464088.5; ENST00000369489.10; ENST00000369487.3
External Link	RMBase: m6A_site_47316
mod ID: M6ASITE045175		Click to Show/Hide the Full List
mod site	chr1:116533499-116533500:-		[11]
Sequence	TATTAAAGTGAAGTTTTCTGACCCTGGACAGCCTATGTCTT
Motif Score	2.839113095
Cell/Tissue List	HEK293T
Seq Type List	DART-seq
Transcript ID List	ENST00000369489.10; ENST00000457047.6; ENST00000464088.5; ENST00000526981.1; ENST00000369487.3; ENST00000319092.5
External Link	RMBase: m6A_site_47317
mod ID: M6ASITE045176		Click to Show/Hide the Full List
mod site	chr1:116533543-116533544:-		[11]
Sequence	TTAGTCCAGGAATATGATGAACCAATCTTGAAATACCTGCA
Motif Score	2.930744048
Cell/Tissue List	HEK293T
Seq Type List	DART-seq
Transcript ID List	ENST00000369489.10; ENST00000369487.3; ENST00000526981.1; ENST00000464088.5; ENST00000457047.6; ENST00000319092.5
External Link	RMBase: m6A_site_47318
mod ID: M6ASITE045177		Click to Show/Hide the Full List
mod site	chr1:116533781-116533782:-		[11]
Sequence	ATTATACCAGCCTCTCTTTGACGAGAGAAGAGAATTTATCA
Motif Score	2.833690476
Cell/Tissue List	HEK293T
Seq Type List	DART-seq
Transcript ID List	ENST00000369487.3; ENST00000319092.5; ENST00000457047.6; ENST00000369489.10; ENST00000464088.5; ENST00000526981.1
External Link	RMBase: m6A_site_47319
mod ID: M6ASITE045178		Click to Show/Hide the Full List
mod site	chr1:116534127-116534128:-		[6]
Sequence	TTAGCCTAGTTACTCACGGGACTTGGTTTACCAGACAAGGG
Motif Score	4.065041667
Cell/Tissue List	CD8T
Seq Type List	m6A-CLIP/IP
Transcript ID List	ENST00000457047.6; ENST00000369489.10; ENST00000526981.1; ENST00000464088.5; ENST00000369487.3
External Link	RMBase: m6A_site_47320
mod ID: M6ASITE045179		Click to Show/Hide the Full List
mod site	chr1:116536046-116536047:-		[12]
Sequence	AAGATGGAAAATGATCTTCCACAAAAAATACAGTGTACTCT
Motif Score	2.053113095
Cell/Tissue List	liver; hESC-HEK293T
Seq Type List	m6A-REF-seq; MAZTER-seq
Transcript ID List	ENST00000457047.6; ENST00000526981.1; ENST00000369487.3; ENST00000464088.5; ENST00000369489.10
External Link	RMBase: m6A_site_47321
mod ID: M6ASITE045180		Click to Show/Hide the Full List
mod site	chr1:116536091-116536092:-		[11]
Sequence	TGTCCTATGGAGCAATGTAAACGTAACTCAACCAGTATATA
Motif Score	2.179660714
Cell/Tissue List	HEK293T
Seq Type List	DART-seq
Transcript ID List	ENST00000464088.5; ENST00000369489.10; ENST00000369487.3; ENST00000457047.6; ENST00000526981.1
External Link	RMBase: m6A_site_47322
mod ID: M6ASITE045181		Click to Show/Hide the Full List
mod site	chr1:116536133-116536134:-		[10]
Sequence	CATTACAACAGCCATCGAGGACTTATAATGTACTCATGGGA
Motif Score	4.065041667
Cell/Tissue List	HeLa; HepG2; HEK293T; U2OS; fibroblasts; A549; GM12878; LCLs; Huh7; peripheral-blood; HEK293A-TOA; iSLK; MSC; TREX
Seq Type List	m6A-seq; MeRIP-seq
Transcript ID List	ENST00000526981.1; ENST00000457047.6; ENST00000464088.5; ENST00000369489.10; ENST00000369487.3
External Link	RMBase: m6A_site_47323
mod ID: M6ASITE045182		Click to Show/Hide the Full List
mod site	chr1:116536210-116536211:-		[5]
Sequence	CAGAGTCTCTTCCATCTCCCACACTAACTTGTGCATTGACT
Motif Score	2.053113095
Cell/Tissue List	hESC-HEK293T
Seq Type List	MAZTER-seq
Transcript ID List	ENST00000464088.5; ENST00000457047.6; ENST00000369489.10; ENST00000526981.1; ENST00000369487.3
External Link	RMBase: m6A_site_47324
mod ID: M6ASITE045183		Click to Show/Hide the Full List
mod site	chr1:116544388-116544389:-		[5]
Sequence	GCCTCACTATCTACAACTTAACATCATCAGATGAAGATGAG
Motif Score	2.168095238
Cell/Tissue List	hESC-HEK293T
Seq Type List	MAZTER-seq
Transcript ID List	ENST00000369489.10; ENST00000369487.3; ENST00000526981.1; ENST00000464088.5; ENST00000457047.6
External Link	RMBase: m6A_site_47325
mod ID: M6ASITE045184		Click to Show/Hide the Full List
mod site	chr1:116544423-116544424:-		[11]
Sequence	TAAAAATAGGGTTTATTTAGACACTGTGTCAGGTAGCCTCA
Motif Score	2.897386905
Cell/Tissue List	HEK293T; hESC-HEK293T
Seq Type List	DART-seq; MAZTER-seq
Transcript ID List	ENST00000457047.6; ENST00000369487.3; ENST00000369489.10; ENST00000526981.1; ENST00000464088.5
External Link	RMBase: m6A_site_47326
mod ID: M6ASITE045185		Click to Show/Hide the Full List
mod site	chr1:116544500-116544501:-		[5]
Sequence	AAAGAGGTCCTATGGAAAAAACAAAAGGATAAAGTTGCAGA
Motif Score	2.20572619
Cell/Tissue List	hESC-HEK293T
Seq Type List	MAZTER-seq
Transcript ID List	ENST00000369489.10; ENST00000369487.3; ENST00000526981.1; ENST00000464088.5; ENST00000457047.6
External Link	RMBase: m6A_site_47327
mod ID: M6ASITE045186		Click to Show/Hide the Full List
mod site	chr1:116544581-116544582:-		[5]
Sequence	TTCATCAGCTGTTTTTCCCAACAAATATATGGTGTTGTGTA
Motif Score	2.173910714
Cell/Tissue List	hESC-HEK293T
Seq Type List	MAZTER-seq
Transcript ID List	ENST00000369487.3; ENST00000464088.5; ENST00000457047.6; ENST00000369489.10; ENST00000526981.1
External Link	RMBase: m6A_site_47328
mod ID: M6ASITE045187		Click to Show/Hide the Full List
mod site	chr1:116571023-116571024:-		[10]
Sequence	ACCGCGTAGGCGGTGCTTGAACTTAGGGCTGCTTGTGGCTG
Motif Score	3.373380952
Cell/Tissue List	HeLa
Seq Type List	m6A-seq
Transcript ID List	ENST00000369487.3; ENST00000457047.6; ENST00000369489.10
External Link	RMBase: m6A_site_47329

Ref 1	Clinical pipeline report, company report or official report of Takeda (2009).
Ref 2	Accurate identification of A-to-I RNA editing in human by transcriptome sequencing. Genome Res. 2012 Jan;22(1):142-50. doi: 10.1101/gr.124107.111. Epub 2011 Sep 29.
Ref 3	RADAR: a rigorously annotated database of A-to-I RNA editing. Nucleic Acids Res. 2014 Jan;42(Database issue):D109-13. doi: 10.1093/nar/gkt996. Epub 2013 Oct 25.
Ref 4	Comprehensive analysis of RNA-Seq data reveals extensive RNA editing in a human transcriptome. Nat Biotechnol. 2012 Feb 12;30(3):253-60. doi: 10.1038/nbt.2122.
Ref 5	Deciphering the "m(6)A Code" via Antibody-Independent Quantitative Profiling. Cell. 2019 Jul 25;178(3):731-747.e16. doi: 10.1016/j.cell.2019.06.013. Epub 2019 Jun 27.
Ref 6	A majority of m6A residues are in the last exons, allowing the potential for 3' UTR regulation. Genes Dev. 2015 Oct 1;29(19):2037-53. doi: 10.1101/gad.269415.115. Epub 2015 Sep 24.
Ref 7	N6-Methyladenosine in Flaviviridae Viral RNA Genomes Regulates Infection. Cell Host Microbe. 2016 Nov 9;20(5):654-665. doi: 10.1016/j.chom.2016.09.015. Epub 2016 Oct 20.
Ref 8	Viral N(6)-methyladenosine upregulates replication and pathogenesis of human respiratory syncytial virus. Nat Commun. 2019 Oct 9;10(1):4595. doi: 10.1038/s41467-019-12504-y.
Ref 9	Structure and thermodynamics of N6-methyladenosine in RNA: a spring-loaded base modification. J Am Chem Soc. 2015 Feb 11;137(5):2107-15. doi: 10.1021/ja513080v. Epub 2015 Feb 2.
Ref 10	VIRMA mediates preferential m(6)A mRNA methylation in 3'UTR and near stop codon and associates with alternative polyadenylation. Cell Discov. 2018 Feb 27;4:10. doi: 10.1038/s41421-018-0019-0. eCollection 2018.
Ref 11	DART-seq: an antibody-free method for global m(6)A detection. Nat Methods. 2019 Dec;16(12):1275-1280. doi: 10.1038/s41592-019-0570-0. Epub 2019 Sep 23.
Ref 12	Single-base mapping of m(6)A by an antibody-independent method. Sci Adv. 2019 Jul 3;5(7):eaax0250. doi: 10.1126/sciadv.aax0250. eCollection 2019 Jul.

m6A Target Gene Information

Cite M6AREG

Correspondence

Prof. Feng ZHU

Prof. Shuiping Liu

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