top of page

mmu_ciCdon_483

Basic information of circular RNA
PanCircBase ID:

mmu_ciCdon_483

mm39_Chr. Position ID:

chr9|35363473|35363956|+

Gene name:

Cdon

Transcript:

ENSMUST00000151682.8

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

2

Exon/intron offsets:

0

Genomic length:

483

Exon/intron sizes in nt:

483

Flanking exon/introns:

chr9:35363473-35363956

Splice length:

483

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTAAGAGGAGAATGATGAGGCCAGGGCTGATGCCTTTCTTCTTAATCTTTTTGCTTTATACTTATGTGAGGATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATAATTCATTGAGCAGCATTTATTACCTGTTTACAAAAAACTGTACGGGCCTGGCATAATGGCACATCTTTAATCCCAGCACTGGGGAGGCAGAGGTAGTCGAATCTCTGTGAGTTCAAGGCCAGCCTGGTCCACCAATCAAAACCAGGACAGTCAGGACTCTTATATAGAGAAACTCTGCCTCAAAAACTGGGGGTGGGGGATGGGGAAGATGGACCTATGAATTATCAGGATTAAGAGCTACCACATATAGAGATGAAAGACTGTCTTGGTCATAGATGCAGATGAAAAGTATTTAATGTATTTTTTTCTCTGTTTTCTGAACCTTCCTCCTTGTATCTCCGGTTTACACCCGGGAACGTTCCGTTGTAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CCTTCCTCCTTGTATCTCCGG

59.31

CACACACACACACACACACA

59.13

140

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CCTTCCTCCTTGTATCTCCGG

59.31

CACACACACACACACACACA

59.13

142

PCR template sequence:

TCATAGATGCAGATGAAAAGTATTTAATGTATTTTTTTCTCTGTTTTCTGAACCTTCCTCCTTGTATCTCCGGTTTACACCCGGGAACGTTCCGTTGTAGGTAAGAGGAGAATGATGAGGCCAGGGCTGATGCCTTTCTTCTTAATCTTTTTGCTTTATACTTATGTGAGGATGTGTGTGTGTGTGTGTGTGTGTGTGTG

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

6

Interacting miRNAs (#binding sites)

mmu-miR-466d-3p(2), mmu-miR-466b-3p(2), mmu-miR-709(1), mmu-miR-381-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-340-5p(1)

siRNAs for circular RNA silencing
Junction sequence

CGTTCCGTTGTAGGTAAGAGGAGAAT

siRNA sets

TCTCCTCTTACCTACAACG, ATTCTCCTCTTACCTACAA, TTCTCCTCTTACCTACAAC

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CICDON_483_ORF_3

0.7495

-0.534345074

0.004095722

78

ORF sequence:

ATGTATTTTTTTCTCTGTTTTCTGAACCTTCCTCCTTGTATCTCCGGTTTACACCCGGGAACGTTCCGTTGTAGGTAA

Peptide sequence:

MYFFLCFLNLPPCISGLHPGTFRCR

IRESfinder result

IRESfinder score

0.77640556

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

bottom of page