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mmu_ciDepp1_846

Basic information of circular RNA
PanCircBase ID:

mmu_ciDepp1_846

mm39_Chr. Position ID:

chr6|116627806|116628652|+

Gene name:

Depp1

Transcript:

ENSMUST00000067354.10

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

1

Exon/intron offsets:

0

Genomic length:

846

Exon/intron sizes in nt:

846

Flanking exon/introns:

chr6:116627806-116628653

Splice length:

846

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTAAGAAGAGCAGCCACCCTTTGGCTTGACACTTTTAAAACACGGGGCTAGTTTATCTCTGAGAGCATCTCTCATCCCGAGCTTTCACGGCCTGACTACTGGATAGAGAGCAGGGGGGTGGGTACCACCGACCACTATGATAATAAGGTGTTTATACAAGGCCTTTGTGTTTACAGGAGAGCTGTGATGTCAAAGCTATGTCTCCGTGAATTTCCCCATATATCCCTGCCAGTGGGATGTTTATAACCCTATTTTTCAGACAAGTAATTAGAGGTTTAGAGAGGTGACATTGCCAGTCTCTAAGTCATTAAGTGGCAGAGACGAGTTTAAAACCTAGGTGTTCTCTGACCCCACATTAATACCCCCCCCCCCGTTTTCTTACCTGTTCGTTCTTCATTTTAAAATTTTTAATTAATTTATTTTATTTTATATGCATGGATATTTTGCCTACACTAATGTATGTGTGCTACACACATGCCAGTCAGACCCCTGGAACTTGATTTATAGATGGCTAGAGCCACTATGTGTGTGCTAAGAACTGAACTCAGGCTCTCTGCAAGAATAAGTACCCTTACCACTGAGCCCCGACTATCTGGCTATTCTTAAACAACACTAATGATGAAGCCTTAGTGAGCTGGGTACTTTGGTGGTAGCTGGAAGGATGAGTGCGGGTGGGGGCAGGGGGGTGAGCCTTGGTCTCAGATCTGCAGGTTTCTTATTGTTTTCTGGGTACCCGAGCCCCGTGTAGCATCTCCGATGAGGGAGAGGAAGTAGGAGGGTGTCAGGGTGGCATGGCGGGCTCGCCACTGGTTTCCTCTTGGCTAACAGGTTGCTTTTGCTTTATTA

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CTCGCCACTGGTTTCCTCTT

59.96

GTAGTCAGGCCGTGAAAGCT

60.04

146

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CTCGCCACTGGTTTCCTCTT

59.96

AGTAGTCAGGCCGTGAAAGC

60.04

147

PCR template sequence:

AGCATCTCCGATGAGGGAGAGGAAGTAGGAGGGTGTCAGGGTGGCATGGCGGGCTCGCCACTGGTTTCCTCTTGGCTAACAGGTTGCTTTTGCTTTATTAGTAAGAAGAGCAGCCACCCTTTGGCTTGACACTTTTAAAACACGGGGCTAGTTTATCTCTGAGAGCATCTCTCATCCCGAGCTTTCACGGCCTGACTACT

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

11

Interacting miRNAs (#binding sites)

mmu-miR-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-30d-5p(1), mmu-miR-30b-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-673-5p(1), mmu-miR-484(1), mmu-miR-540-3p(1)

siRNAs for circular RNA silencing
Junction sequence

TTTTGCTTTATTAGTAAGAAGAGCAG

siRNA sets

NA

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

0.78778087

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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