RMBase v3.0: Decipher the Landscape, Mechanism and Function of RNA Modifications by Integrating Multi-dimensional High-throughput Sequencing Data.

Details of RNA Modification Site of hg38

mod ID

m6A_site_293749

mod Site

chr15:88910260-88910261:-

mod Type

m6A

Sequence

TGCCAAGAGACCTGCCCTGGACCTTGCCTGCCTCTCCAGAC

Motif Score

3.62240476190476

RNA Structure Motif

.((((...((...((......)).)).))))

MFE

-4.40

Support Dataset Num

Support sub-Dataset Num

Support Dataset List

GSE120229, GSE52600, GSE55572, GSE65380, GSE85724, GSE87515, GSE93676, GSE93911, GSE94808

Support sub-Dataset List

GSM3396437, GSM3396438, GSM1272358, GSM1272360, GSM1272366, GSM1272368, GSM1339395, GSM1339407, GSM1594131, GSM2283213, GSM2283214, GSM2332975, GSM2332977, GSM2332978, GSM2460352, GSM2460354, GSM2460360, GSM2754220, GSM2754226, GSM2754244, GSM2754246, GSM2464905, GSM2464907, GSM2464909, GSM2464911, GSM2464913, GSM2464915, GSM2464917, GSM2464919, GSM2464923, GSM2483505

Cell/Tissue List

HEK293T, H1A, H1B, hESCs, fibroblasts, GM12878, Jurkat, CD4T, GSC-11, MSC, TREX, TIME, endometrial, GSCs

Seq Type List

MeRIP-seq,m6A-seq

Transcript ID List

ENST00000558029.5,ENST00000268151.11,ENST00000268150.13,ENST00000558773.1,ENST00000558018.5,ENST00000558352.5,ENST00000566497.5,ENST00000542878.5,ENST00000559997.5

Transcript Detail

Transcript ID	Gene ID	Gene Name	Gene Type	Region
ENST00000558029.5	ENSG00000140545.15	MFGE8	protein_coding	intron-1
ENST00000268151.11	ENSG00000140545.15	MFGE8	protein_coding	intron-1
ENST00000268150.13	ENSG00000140545.15	MFGE8	protein_coding	intron-1
ENST00000558773.1	ENSG00000140545.15	MFGE8	retained_intron	exon-2
ENST00000558018.5	ENSG00000140545.15	MFGE8	nonsense_mediated_decay	intron-2
ENST00000558352.5	ENSG00000140545.15	MFGE8	retained_intron	intron-1
ENST00000566497.5	ENSG00000140545.15	MFGE8	protein_coding	intron-1
ENST00000542878.5	ENSG00000140545.15	MFGE8	protein_coding	intron-1
ENST00000559997.5	ENSG00000140545.15	MFGE8	processed_transcript	intron-1

Conserved Sites

snoRNA Num

snoRNA Guide Site

snoRNA Guide Detail

writer Num

Writer Name List

RBM15

Writer Catalysis Detail

Writer Name	Writer ID	Writer Binding Site	Source
RBM15	RBM15:CH25960	chr15:88910196-88910276	SBDH828-6705

PubMed ID

25456834, 24981863, 25611135, 27371828, 28344040, 29109479, 30154548, 28297667

Discription & Help

♥ There is a specific explanation when the mouse hover the logo in the upper right corner of each entry.

♥ The "modID" is unique ID among all modules and can be used to retrieve in all files of the RMBase v3.0 for more information.

♥ The "Motif score" is alignment score to evaluate the accuracy of identified motif regions of m6A. The higher of motif score means a more accurate motif and a more reliable modification site. The range is from 0 to 5.

♥ In "Transcript Detail", the "Gene Type" is gene biotypes including protein-coding genes (mRNAs), tRNAs, rRNAs, Mt-tRNAs, lincRNAs, pseudogenes etc.; While the "Region" is gene features including CDS, 3′-UTR, 5′-UTR, intron, exon and intergenic.

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