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_158452

mod Site

chr11:86068850-86068851:-

mod Type

m6A

Sequence

GGGTGCGGTGGGGGGTGGGGACCCTCCGGCTCTTGGGGGTC

Motif Score

3.62240476190476

RNA Structure Motif

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

MFE

-15.80

Support Dataset Num

Support sub-Dataset Num

Support Dataset List

GSE102493, GSE110320, GSE112795, GSE125803, GSE29714, GSE46705, GSE48037, GSE52600, GSE70299, GSE76367, GSE76414, GSE85724, GSE87190, GSE87515, GSE87516, GSE93676, GSE93911, GSE94808, GSE97408

Support sub-Dataset List

GSM2739502, GSM2739507, GSM2739522, GSM2739523, GSM2739534, GSM2739535, GSM2987447, GSM2987448, GSM2987449, GSM3083805, GSM3083806, GSM3083809, GSM3083810, GSM3582046, GSM3582047, GSM3582048, GSM3582049, GSM3582052, GSM3582053, GSM3582054, GSM928399, GSM928403, GSM1135020, GSM1166143, GSM1272358, GSM1272360, GSM1272362, GSM1272364, GSM1272366, GSM1272368, GSM1723351, GSM1982257, GSM1982263, GSM2010454, GSM2010456, GSM2283210, GSM2283211, GSM2283212, GSM2283213, GSM2283214, GSM2283215, GSM2324292, GSM2324298, GSM2324308, GSM2324310, GSM2332975, GSM2332977, GSM2332978, GSM2332985, GSM2332986, GSM2332987, GSM2332988, GSM2332989, GSM2332990, GSM2460345, GSM2460350, GSM2460352, GSM2460354, GSM2460356, GSM2460358, GSM2460360, GSM2754211, GSM2754213, GSM2754214, GSM2754216, GSM2754220, GSM2754224, GSM2754237, GSM2754240, GSM2754248, GSM2464905, GSM2464907, GSM2464909, GSM2464911, GSM2464913, GSM2464915, GSM2464919, GSM2464921, GSM2464923, GSM2464927, GSM2464931, GSM2483505, GSM2564019, GSM2564022

Cell/Tissue List

HeLa, HepG2, A549, HEK293T, U2OS, H1A, H1B, LCLs, H1299, MM6, Jurkat, CD4T, peripheral-blood, GSC-11, iSLK, MSC, TIME, TREX, endometrial, HEC-1-A, GSCs, NB4

Seq Type List

m6A-seq,MeRIP-seq

Transcript ID List

ENST00000525162.5,ENST00000526033.5,ENST00000630913.2,ENST00000528256.1,ENST00000393346.8,ENST00000531930.5,ENST00000532317.5,ENST00000532041.5,ENST00000528398.5,ENST00000528411.1,ENST00000531558.1

Transcript Detail

Transcript ID	Gene ID	Gene Name	Gene Type	Region
ENST00000525162.5	ENSG00000073921.18	PICALM	protein_coding	intron-1
ENST00000526033.5	ENSG00000073921.18	PICALM	protein_coding	utr5-1
ENST00000630913.2	ENSG00000073921.18	PICALM	protein_coding	utr5-1
ENST00000528256.1	ENSG00000073921.18	PICALM	protein_coding	intron-1
ENST00000393346.8	ENSG00000073921.18	PICALM	protein_coding	utr5-1
ENST00000531930.5	ENSG00000073921.18	PICALM	protein_coding	intron-1
ENST00000532317.5	ENSG00000073921.18	PICALM	protein_coding	utr5-1
ENST00000532041.5	ENSG00000073921.18	PICALM	nonsense_mediated_decay	utr5-1
ENST00000528398.5	ENSG00000073921.18	PICALM	protein_coding	intron-1
ENST00000528411.1	ENSG00000073921.18	PICALM	processed_transcript	intron-1
ENST00000531558.1	ENSG00000073921.18	PICALM	nonsense_mediated_decay	utr5-1

Conserved Sites

mm10:m6A_site_557765;rheMac8:m6A_site_19215

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:CH15824	chr11:86068745-86068867	SBDH828-4231

PubMed ID

29507755, 3086759, 31061416, 31597913, 22608085, 24284625, 24209618, 25456834, 27773535, 27117702, 28017614, 27371828, 29249359, 28344040, 27773536, 29109479, 30154548, 28297667, 29290617

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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