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mmu_ciChd8_1057

Basic information of circular RNA
PanCircBase ID:

mmu_ciChd8_1057

mm39_Chr. Position ID:

chr14|52458881|52459938|-

Gene name:

Chd8

Transcript:

ENSMUST00000089752.11

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

10

Exon/intron offsets:

0

Genomic length:

1057

Exon/intron sizes in nt:

1057

Flanking exon/introns:

chr14:52458881-52459938

Splice length:

1057

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTAAGTGCATCTGGATTTAGAAGACAAGCGTAGTGGAAAGGACTGTCAAGACTTTATTTTCTTTTCCTACTTGCAGTTTTTATTGGTTTAGCTTTCTGTTATGGAAATTCTCTTAACATGTAAGAAAGGGTTAACTATGATATAATATAATATAATATACCAATCATTAAGGCAGAGTTAATACGTGTTCAATTGTGCGTCTTATTTTAAATCAAATTACACATCACATCTAGAGCTTCAACGGGCAGAAAAGGGAAAGCAGTGCATTTGTTCATACACGGTCTGTACTTGAGTCCGGTTGTATTTTGTGATGTCCTCGTTGTCTGCATTTAAGCTTTGTAGCACATGTCTGCCTTCCAAGCTACTTGAGATGTGGAGATATTGAAGTGCAAGGTCAGCCTAGACAGATGAGATACTGTCTCCCAAAACAAAGCACAAAATGTCATATTTATTTGGTTCGTTTGATGTTTGGTTTTCAAGACGGTTTCTCTTTATAACCTTTGCTATCCTAACTTACTCTGTAAACCAGGCTGGCCTCAAACCCAGAGTTCCAGTGGCCTCTGCCTCCCGAGTGCTGAGATTAAAGGTGTGTGCTGTGAAAAGATTCTTCAAGGCTTAGAAACCCAGGGTCCCTCCTGCCTCATCGCTGTGAGGGCCAGGATTACAGGCATACATCACTGCACCCAATTTTCTTTAAGGACTTCGTTTTAAATTTTCTTTCTTTCCCCTTTTATAATATTTATTTTATGTGTATGTGTGATTTCTCTGCACAACAGAAGGCAGCATTGAATCCCATGTCTCTACAGTTATAAACTCTTGTGAGCTGCCATGTGAATGCTAGAATTCAATAAACTCAGAAAGTCTGGAAGAGCAGGCAGTGGGCTTCGCTCTTGAACTCTCTCTCTTCAGCCCTCTAAATATTTTAACTGTAGTTTCCTGGCATCTTCCTCAAGTATCCTATGGGCTGTCTTTAAAAAATAATATACATTCATGAATACAAATGTATTTCACAAGTTATAACCCACTGCTCCACTAATTCAAAGTTTTTACTTTTTAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

AGTTATAACCCACTGCTCCACT

58.82

CAGAAAGCTAAACCAATAAAAACTGCA

59.56

143

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

AGTTATAACCCACTGCTCCACT

58.82

ACAGAAAGCTAAACCAATAAAAACTGC

59.56

144

PCR template sequence:

CTATGGGCTGTCTTTAAAAAATAATATACATTCATGAATACAAATGTATTTCACAAGTTATAACCCACTGCTCCACTAATTCAAAGTTTTTACTTTTTAGGTAAGTGCATCTGGATTTAGAAGACAAGCGTAGTGGAAAGGACTGTCAAGACTTTATTTTCTTTTCCTACTTGCAGTTTTTATTGGTTTAGCTTTCTGTT

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

14

Interacting miRNAs (#binding sites)

mmu-miR-211-5p(1), mmu-miR-328-3p(1), mmu-miR-216a-5p(1), mmu-miR-709(1), mmu-miR-185-5p(1), mmu-miR-139-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-127-5p(1), mmu-miR-340-5p(1), mmu-miR-377-3p(1), mmu-miR-673-5p(1), mmu-miR-539-5p(1), mmu-miR-466b-3p(1), mmu-miR-7a-1-3p(1)

siRNAs for circular RNA silencing
Junction sequence

TTTTACTTTTTAGGTAAGTGCATCTG

siRNA sets

ATGCACTTACCTAAAAAGT

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

0.894127082

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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