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mmu_ciRbm39_673

Basic information of circular RNA
PanCircBase ID:

mmu_ciRbm39_673

mm39_Chr. Position ID:

chr2|156015343|156016016|-

Gene name:

Rbm39

Transcript:

ENSMUST00000153514.8

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

4

Exon/intron offsets:

0

Genomic length:

673

Exon/intron sizes in nt:

673

Flanking exon/introns:

chr2:156014942-156016016

Splice length:

673

Other database IDs:

​

​

Human Ortholog IDs:
Mature spliced Sequence:

GTGGGTGTCTTCATTTTCTATTTTCAATGCACTCTAAGATGACCTGCTTACAGGTTCTCTGAGGCACACCTCAGTTGTTCTTGTGCTAACTTAACTTTGCTTTGATACAAATTAAAGCTCATTAATTTTCCTAATGATGTAGAGTTGTCAAAATGTTCAGATCTCAAACCACTTACAAATGGACATTTTGGTGGAGTAAACATATTTTTAAATAGATTTCAATTTACATTGAAATATCTGAAGGCACCTCTAATTTGGGTGATGATAGAGGTACAGATTTCAAGGTTTAATTGTTAAACCAGTGGGTGAAATACTGTGAGGAACCCAGAAGTGAGTGGAAAGATAACTGGCTTTTTTTTTTTTTTTAAACTTTCCAAGGAAGGAAGGTCAAATTGGTTTAATTGCATCCTACAGGCTTATGTAAATGAGCTTAAAAAGGGCATTTTCTATTTCATAATAGCTTTAAGTGGTTACAGTAAAATCTTGAATTGTGAGTGAATTTTACTGCATTCTTAGGATCCTTATTCTTGTAATCTTGCCCATAAAAAGCAAAATGATATGTATATTGTGTTTTGAAAAGTATAAAACATTCTTAAATGTATACAGTGTCAAGATTGACTTAAACTAAATTGTTAATGGAAAATTTTTTTAGGACAATTACTATTTCTTGATT

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CTTAAATGTATACAGTGTCAAGATTGA

56.01

GGTGTGCCTCAGAGAACCTG

60.32

152

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TCTTAAATGTATACAGTGTCAAGATTG

56.01

GGTGTGCCTCAGAGAACCTG

60.32

153

PCR template sequence:

TGAAAAGTATAAAACATTCTTAAATGTATACAGTGTCAAGATTGACTTAAACTAAATTGTTAATGGAAAATTTTTTTAGGACAATTACTATTTCTTGATTGTGGGTGTCTTCATTTTCTATTTTCAATGCACTCTAAGATGACCTGCTTACAGGTTCTCTGAGGCACACCTCAGTTGTTCTTGTGCTAACTTAACTTTGC

Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs

1

Interacting miRNAs (#binding sites)

mmu-miR-31-5p(1)

siRNAs for circular RNA silencing
Junction sequence

CTATTTCTTGATTGTGGGTGTCTTCA

siRNA sets

GAAGACACCCACAATCAAG,AAGACACCCACAATCAAGA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

NA

NA

NA

NA

NA

ORF sequence:

NA

Peptide sequence:

NA

IRESfinder result

IRESfinder score

0.934991793

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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