m6A Target Gene Information

General Information of the m6A Target Gene (ID: M6ATAR01338)

Target Name	Syndecan-4 (SDC4)
Synonyms	SYND4; Amphiglycan; Ryudocan core protein Click to Show/Hide
Gene Name	SDC4
Chromosomal Location	20q13.12
Family	Syndecan proteoglycan family
Function	Cell surface proteoglycan which regulates exosome biogenesis in concert with SDCBP and PDCD6IP (PubMed:22660413). Click to Show/Hide
Gene ID	6385
Uniprot ID	SDC4_HUMAN
HGNC ID	HGNC:10661
KEGG ID	hsa:6385

RNA Modification Sequencing Data Associated with the Target (ID: M6ATAR01338)

Syndecan-4 (SDC4)

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

In total 2 m6A sequence/site(s) in this target gene
mod ID: A2ISITE010687		Click to Show/Hide the Full List
mod site	chr20:45334302-45334303:-		[2]
Sequence	TGGGGATCTTGTTAAAATGTAGATTTTGGCCGGGCGCGGTG
Transcript ID List	ENST00000372733.3
External Link	RMBase: RNA-editing_site_87685
mod ID: A2ISITE010688		Click to Show/Hide the Full List
mod site	chr20:45346584-45346585:-		[2]
Sequence	AGTACAGGGAAAAAGAGGAAAGGACCCAGGAGGTTGCTGAG
Transcript ID List	ENST00000372733.3
External Link	RMBase: RNA-editing_site_87686

N1-methyladenosine (m1A)

In total 2 m6A sequence/site(s) in this target gene
mod ID: M1ASITE000083		Click to Show/Hide the Full List
mod site	chr20:45335872-45335873:-		[3]
Sequence	CAGGACCTCCTAGAAGGCCGATACTTCTCCGGAGCCCTACC
Cell/Tissue List	HEK293T
Seq Type List	m1A-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m1A_site_632
mod ID: M1ASITE000084		Click to Show/Hide the Full List
mod site	chr20:45348423-45348424:-		[4]
Sequence	TGGCGCGCCCGCCCGGGGCCACTCGCCGCAGCCTGCGCGCC
Cell/Tissue List	HEK293T
Seq Type List	m1A-MAP-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m1A_site_633

N6-methyladenosine (m6A)

In total 29 m6A sequence/site(s) in this target gene
mod ID: M6ASITE053233		Click to Show/Hide the Full List
mod site	chr20:45325303-45325304:-		[5]
Sequence	TTTGATAAAAAGATAATAAAACCTGGTACTTTCTAAACTGC
Motif Score	2.185083333
Cell/Tissue List	HeLa; Huh7
Seq Type List	m6A-seq; MeRIP-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533558
mod ID: M6ASITE053234		Click to Show/Hide the Full List
mod site	chr20:45325693-45325694:-		[5]
Sequence	GCACTATTCTAGAGAACTAAACTGGCTTAACGAGTCACAGC
Motif Score	2.627720238
Cell/Tissue List	HeLa
Seq Type List	m6A-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533559
mod ID: M6ASITE053235		Click to Show/Hide the Full List
mod site	chr20:45325698-45325699:-		[5]
Sequence	GGACAGCACTATTCTAGAGAACTAAACTGGCTTAACGAGTC
Motif Score	3.373380952
Cell/Tissue List	HeLa
Seq Type List	m6A-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533560
mod ID: M6ASITE053236		Click to Show/Hide the Full List
mod site	chr20:45325716-45325717:-		[5]
Sequence	AGAGCATGTCCATCTGTTGGACAGCACTATTCTAGAGAACT
Motif Score	3.643047619
Cell/Tissue List	HeLa
Seq Type List	m6A-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533561
mod ID: M6ASITE053237		Click to Show/Hide the Full List
mod site	chr20:45325746-45325747:-		[6]
Sequence	ATGTAGTTCATGGCTACTGTACTGACAGCGAGAGCATGTCC
Motif Score	3.278136905
Cell/Tissue List	HEK293T
Seq Type List	DART-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533562
mod ID: M6ASITE053238		Click to Show/Hide the Full List
mod site	chr20:45325771-45325772:-		[6]
Sequence	ACCACGTTTCTAGAGGCGTCACTGTATGTAGTTCATGGCTA
Motif Score	2.469291667
Cell/Tissue List	HEK293T
Seq Type List	DART-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533563
mod ID: M6ASITE053239		Click to Show/Hide the Full List
mod site	chr20:45325791-45325792:-		[6]
Sequence	TTCCTTCCTCAGTTGCACTAACCACGTTTCTAGAGGCGTCA
Motif Score	2.147452381
Cell/Tissue List	HEK293T
Seq Type List	DART-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533564
mod ID: M6ASITE053240		Click to Show/Hide the Full List
mod site	chr20:45325795-45325796:-		[6]
Sequence	AAAATTCCTTCCTCAGTTGCACTAACCACGTTTCTAGAGGC
Motif Score	3.252583333
Cell/Tissue List	HEK293T
Seq Type List	DART-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533565
mod ID: M6ASITE053241		Click to Show/Hide the Full List
mod site	chr20:45325826-45325827:-		[7]
Sequence	AAGTTAAGCCAATTAAAATCACATAAGATTAAAAATTCCTT
Motif Score	2.047297619
Cell/Tissue List	hESC-HEK293T
Seq Type List	MAZTER-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533566
mod ID: M6ASITE053242		Click to Show/Hide the Full List
mod site	chr20:45325861-45325862:-		[8]
Sequence	TGCTATCCAATACAGTAACCACATGCGGCTGTTTAAAGTTA
Motif Score	2.053113095
Cell/Tissue List	kidney
Seq Type List	m6A-REF-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533567
mod ID: M6ASITE053243		Click to Show/Hide the Full List
mod site	chr20:45325864-45325865:-		[6]
Sequence	CTGTGCTATCCAATACAGTAACCACATGCGGCTGTTTAAAG
Motif Score	2.147452381
Cell/Tissue List	HEK293T
Seq Type List	DART-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533568
mod ID: M6ASITE053244		Click to Show/Hide the Full List
mod site	chr20:45326222-45326223:-		[5]
Sequence	ATAAAATAGCTTTTGCCGAAACATAGTTTTTTTTTAGCAGA
Motif Score	2.20572619
Cell/Tissue List	HeLa; HEK293T; hESC-HEK293T
Seq Type List	m6A-seq; DART-seq; MAZTER-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533569
mod ID: M6ASITE053245		Click to Show/Hide the Full List
mod site	chr20:45326288-45326289:-		[5]
Sequence	GTTTTTTTTTTATACTTTAAACCCCGCTCCTCATGGCCTTG
Motif Score	2.185083333
Cell/Tissue List	HeLa
Seq Type List	m6A-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533570
mod ID: M6ASITE053246		Click to Show/Hide the Full List
mod site	chr20:45326295-45326296:-		[6]
Sequence	TTCCCCAGTTTTTTTTTTATACTTTAAACCCCGCTCCTCAT
Motif Score	2.53247619
Cell/Tissue List	HEK293T
Seq Type List	DART-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533571
mod ID: M6ASITE053247		Click to Show/Hide the Full List
mod site	chr20:45326811-45326812:-		[5]
Sequence	AAATGGGGGAAGGAACTAGAACCACCTGCACCTTGAGATGT
Motif Score	2.930744048
Cell/Tissue List	HeLa; HEC-1-A
Seq Type List	m6A-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533572
mod ID: M6ASITE053248		Click to Show/Hide the Full List
mod site	chr20:45326817-45326818:-		[5]
Sequence	GCCAGGAAATGGGGGAAGGAACTAGAACCACCTGCACCTTG
Motif Score	3.373380952
Cell/Tissue List	HeLa; HEC-1-A
Seq Type List	m6A-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533573
mod ID: M6ASITE053249		Click to Show/Hide the Full List
mod site	chr20:45326852-45326853:-		[8]
Sequence	GGCCTTCCTCCCTTCCTTTCACAGCCGGTCTCTCTGCCAGG
Motif Score	2.047297619
Cell/Tissue List	kidney
Seq Type List	m6A-REF-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533574
mod ID: M6ASITE053250		Click to Show/Hide the Full List
mod site	chr20:45326996-45326997:-		[5]
Sequence	GGGATTGGATCACTTCTTAAACTTCCAGTTAAGAATCTAGG
Motif Score	2.627720238
Cell/Tissue List	HeLa; HepG2; HEK293T; A549; U2OS; H1A; Huh7; GSC-11; MSC; endometrial; HEC-1-A
Seq Type List	m6A-seq; MeRIP-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533575
mod ID: M6ASITE053251		Click to Show/Hide the Full List
mod site	chr20:45327019-45327020:-		[5]
Sequence	TTGGCCTTTCTGAAGGCAAGACTGGGATTGGATCACTTCTT
Motif Score	3.319380952
Cell/Tissue List	HeLa; HepG2; HEK293T; A549; U2OS; H1A; Huh7; GSC-11; HEK293A-TOA; MSC; endometrial; HEC-1-A
Seq Type List	m6A-seq; MeRIP-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533576
mod ID: M6ASITE053252		Click to Show/Hide the Full List
mod site	chr20:45327116-45327117:-		[5]
Sequence	CTTTGAAGTGTTCAGAAGAGACATTGTCTTCTACTGTTCTG
Motif Score	2.897386905
Cell/Tissue List	HeLa; HepG2; HEK293T; kidney; A549; U2OS; H1A; H1B; hESCs; fibroblasts; H1299; Huh7; peripheral-blood; GSC-11; HEK293A-TOA; iSLK; MSC; TIME; endometrial; HEC-1-A
Seq Type List	m6A-seq; MeRIP-seq; m6A-REF-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533577
mod ID: M6ASITE053253		Click to Show/Hide the Full List
mod site	chr20:45327197-45327198:-		[5]
Sequence	CAGGGGATTTTGAAGGGTGGACATTAGGGTAGGGTGAGGTC
Motif Score	3.643047619
Cell/Tissue List	HeLa; HepG2; HEK293T; A549; U2OS; H1A; H1B; hESCs; fibroblasts; GM12878; MT4; H1299; MM6; Huh7; Jurkat; CD4T; peripheral-blood; GSC-11; HEK293A-TOA; iSLK; MSC; TIME; endometrial; HEC-1-A; NB4
Seq Type List	m6A-seq; MeRIP-seq; DART-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533578
mod ID: M6ASITE053254		Click to Show/Hide the Full List
mod site	chr20:45327237-45327238:-		[5]
Sequence	GCTTGTGGGCACTGGCTTGGACTTTAGCGGGGAGGGAAGCC
Motif Score	4.065041667
Cell/Tissue List	HeLa; HepG2; HEK293T; A549; U2OS; H1A; H1B; hESCs; fibroblasts; MT4; H1299; MM6; Huh7; Jurkat; CD4T; peripheral-blood; GSC-11; HEK293A-TOA; iSLK; MSC; endometrial; HEC-1-A; NB4
Seq Type List	m6A-seq; MeRIP-seq; m6A-CLIP/IP
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533579
mod ID: M6ASITE053255		Click to Show/Hide the Full List
mod site	chr20:45327247-45327248:-		[6]
Sequence	CGTGAAGCTTGCTTGTGGGCACTGGCTTGGACTTTAGCGGG
Motif Score	3.252583333
Cell/Tissue List	HEK293T
Seq Type List	DART-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533580
mod ID: M6ASITE053256		Click to Show/Hide the Full List
mod site	chr20:45327305-45327306:-		[5]
Sequence	AGCTATGACCTGGGCAAGAAACCCATCTACAAGAAAGCCCC
Motif Score	2.185083333
Cell/Tissue List	HeLa; HepG2; HEK293T; U2OS; A549; MT4; MM6; Huh7; HEK293A-TOA; iSLK; MSC; endometrial; HEC-1-A
Seq Type List	m6A-seq; MeRIP-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533581
mod ID: M6ASITE053257		Click to Show/Hide the Full List
mod site	chr20:45330495-45330496:-		[5]
Sequence	GTCCCCACCGAACCCAAGAAACTAGAGGAGAATGAGGTTAT
Motif Score	2.627720238
Cell/Tissue List	HeLa; HepG2; endometrial; HEC-1-A
Seq Type List	m6A-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533582
mod ID: M6ASITE053258		Click to Show/Hide the Full List
mod site	chr20:45330504-45330505:-		[5]
Sequence	GGGAGCCAAGTCCCCACCGAACCCAAGAAACTAGAGGAGAA
Motif Score	2.930744048
Cell/Tissue List	HeLa; HepG2; endometrial; HEC-1-A
Seq Type List	m6A-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533583
mod ID: M6ASITE053259		Click to Show/Hide the Full List
mod site	chr20:45333056-45333057:-		[5]
Sequence	CCTTACAGATGACTTGGAAGACTCCATGATCGGCCCTGAAG
Motif Score	3.319380952
Cell/Tissue List	HeLa; HepG2; endometrial; HEC-1-A
Seq Type List	m6A-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533584
mod ID: M6ASITE053260		Click to Show/Hide the Full List
mod site	chr20:45335888-45335889:-		[5]
Sequence	TGAGGTCATCGACCCCCAGGACCTCCTAGAAGGCCGATACT
Motif Score	3.622404762
Cell/Tissue List	HeLa; HepG2; A549; H1B; H1A; MM6; CD4T; HEK293A-TOA; iSLK; MSC; TIME; endometrial; HEC-1-A
Seq Type List	m6A-seq; MeRIP-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533585
mod ID: M6ASITE053261		Click to Show/Hide the Full List
mod site	chr20:45335910-45335911:-		[5]
Sequence	CTTTATCTTAGATCCGAGAGACTGAGGTCATCGACCCCCAG
Motif Score	3.319380952
Cell/Tissue List	HeLa; HepG2; A549; H1B; H1A; MT4; MM6; CD4T; HEK293A-TOA; iSLK; MSC; TIME; endometrial; HEC-1-A
Seq Type List	m6A-seq; MeRIP-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m6A_site_533586

N7-methylguanosine (m7G)

In total 1 m6A sequence/site(s) in this target gene
mod ID: m7GSITE000082		Click to Show/Hide the Full List
mod site	chr20:45326677-45326678:-		[9]
Sequence	AACCTTTTTTATTTGGGGGGGAGGATGGGGAAAAGAGCTGA
Cell/Tissue List	A549; HeLa; HepG2
Seq Type List	BoRed-seq&m7G-RIP-seq; m7G-seq
Transcript ID List	ENST00000372733.3
External Link	RMBase: m7G_site_570

Ref 1	Interaction of the breast cancer resistance protein with plant polyphenols. Biochem Biophys Res Commun. 2004 Apr 23;317(1):269-75.
Ref 2	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 3	The m1A landscape on cytosolic and mitochondrial mRNA at single-base resolution. Nature. 2017 Nov 9;551(7679):251-255. doi: 10.1038/nature24456. Epub 2017 Oct 25.
Ref 4	Base-Resolution Mapping Reveals Distinct m(1)A Methylome in Nuclear- and Mitochondrial-Encoded Transcripts. Mol Cell. 2017 Dec 7;68(5):993-1005.e9. doi: 10.1016/j.molcel.2017.10.019. Epub 2017 Nov 5.
Ref 5	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 6	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 7	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 8	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.
Ref 9	METTL1 Promotes let-7 MicroRNA Processing via m7G Methylation. Mol Cell. 2019 Jun 20;74(6):1278-1290.e9. doi: 10.1016/j.molcel.2019.03.040. Epub 2019 Apr 25.

m6A Target Gene Information

Cite M6AREG

Correspondence

Prof. Feng ZHU

Prof. Shuiping Liu

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