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mmu_ciCrebbp_421

Basic information of circular RNA
PanCircBase ID:

mmu_ciCrebbp_421

mm39_Chr. Position ID:

chr16|3942078|3942499|-

Gene name:

Crebbp

Transcript:

ENSMUST00000205685.2

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

3

Exon/intron offsets:

0

Genomic length:

421

Exon/intron sizes in nt:

421

Flanking exon/introns:

chr16:3937720-3942499

Splice length:

421

Other database IDs:

​

​

Human Ortholog IDs:
Mature spliced Sequence:

GTAAGAACTGCATTTCTCTCTTCCAGTCCTTAGCTTGTTTGCTTAGTGCTCTTTTAGTCTTTGGAGTATATTTTTAAGACTACAGAGTTCTGTTCTCCAAAATCTGCACTTTGAAAGCTCTTTGTATGATCTTGCCTTATGGGAAGAATCTTTTATTTTTGTTTCTTTTTTGGTGTCTCCCAAGTTTTTCAAGACAGGCTTATTTCTCTGTGCACCCCTGGCTAATCTGGAGCTCACTCTGTAGACCAGGCTAGCTTCAAATTCAGAGATCCTCTGCCGCTGCCGCCGCCCACCTTCCCCTCACCACTGCCCAGCAGAGGGGAGATATCTTAAAAGGGTGTGCTGGCAAGTGTCTTTTAGATTCAATGTGTTTGTGTGTGTGTATGTGTATTTATTTTTAATTACATTTTCCTCCTTATAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

AAAAGGGTGTGCTGGCAAGT

60.69

AGCACTAAGCAAACAAGCTAAGG

59.5

140

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TCTTAAAAGGGTGTGCTGGCA

60.13

GCACTAAGCAAACAAGCTAAGGA

59.5

143

PCR template sequence:

GAGATATCTTAAAAGGGTGTGCTGGCAAGTGTCTTTTAGATTCAATGTGTTTGTGTGTGTGTATGTGTATTTATTTTTAATTACATTTTCCTCCTTATAGGTAAGAACTGCATTTCTCTCTTCCAGTCCTTAGCTTGTTTGCTTAGTGCTCTTTTAGTCTTTGGAGTATATTTTTAAGACTACAGAGTTCTGTTCTCCAA

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

12

Interacting miRNAs (#binding sites)

mmu-miR-20b-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-31-5p(1), mmu-miR-106b-5p(1), mmu-miR-335-5p(1), mmu-miR-298-5p(1), mmu-miR-185-5p(1), mmu-miR-127-5p(1), mmu-miR-466d-3p(1), mmu-miR-539-5p(1), mmu-miR-466b-3p(1)

siRNAs for circular RNA silencing
Junction sequence

TTCCTCCTTATAGGTAAGAACTGCAT

siRNA sets

GCAGTTCTTACCTATAAGG

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

0.9649725

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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