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mmu_ciEif3e_1416

Basic information of circular RNA
PanCircBase ID:

mmu_ciEif3e_1416

mm39_Chr. Position ID:

chr15|43124578|43125994|-

Gene name:

Eif3e

Transcript:

ENSMUST00000022960.4

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

9

Exon/intron offsets:

0

Genomic length:

1416

Exon/intron sizes in nt:

1416

Flanking exon/introns:

chr15:43124565-43125994

Splice length:

1416

Other database IDs:

​

​

Human Ortholog IDs:
Mature spliced Sequence:

GTAAGTATGAATTTTTACTAAGCAATTTATATTCTTAAATTTCAAGATGTAGTAAAGTATTGAAGTAATTGAATAAGAAAAAATAAACTAAATGGTATATTATTGACAGAATGAAGACACCTAGTTGGTATTGTCTCCTTTAGGTTACAGAAATTAAAACATCAGCTATCTGAATTCATCTGATTCTCCTTAATTCTGTTTCTCTAATCTGGTTCATATGTACATGCATACCACAAATGTGGTCCCCTTATTTATAGATGGAATTACTTGTAGAAAAGATTAAATTTAACATTTCATATAAACTAAGCAATTTATTACAGTTATGTTTTTATACCTAAATTTTCCTATTTAGTTAAAAATAAAGTTCTTTCAGAGCAAGTCTGGAATTCGATATGTAAACCAAGCAGTCAGTGGATTTATGGAGATACATGCGCCTGCTCTGTCTCCCAAGGGCTGGTGTGAGAGGCCTGTACCATCACGCTCTGATGCTGGTTTTTGGTTTTGTTTAATTTTTAAAGAAGTTTCCTGTTTTTTAGTGGATGTAGGCACACATGTGGAAGTCAGGACAACTGTGCGGAATCTTTGTTGTTGTTTTCCTGTTACATGGCTTCCAGAGGTTTAATTCTGTGTTAGGCTTGCATGCTGTGTGCTTTATCCACTGAGCCATCTCCAGCCATGCCACAACTATTTGTTTATTTATTTGCTCATATTCCCAACATATTAGGGGTTAGGCGAGGGTGTGTACACAGTTTGCTGTTTATCTTAAGGTGATCCTAGGCTCACGATCACTATACCTTAGGTTTCTGAGTGGAGAGACTGAAAGTGCAATCCCATCCTCAGATAGTTTTGTCTTTTAAAATCAAGTTACAGGAACAGAATTCCCAGTTTAGCTAAGAGCTTGTTTCTCTAAAAGAAAAAAATGTAAATTGTTTTTTAATTAGTCAAAATAGGAAACTAAAATCTTCCTTGATAGTTTGTGTCATTATAACCATATGAACATTACACATTACATATACATTCCTTTTAAAATAATCTCTTAATTATTACTGTCTTTGACATAGGAGCTGTTCATTGCAATGTTTCCTAACCCTGTCTTGTTATAGAAAGTTCATTCCCTTAGTTCATTCTTTATTTTTAAGTTAGCTAGAGCATGTTGTACCAAAAAAAATGTATCATGGAAGTTACTCTGTTAACCTCAATCATCAATAAAACAAGGAGACATTGGTAATTCCTGGAGTTTTTATTTTTTTCCTGTTATTCTTTATTTGTTTTAATTATTTCGGATTTGGACGTGAGCAACATTCTAAAGAGTACTATGTTGTAGGATTTTTTTAAGATAGTGAGTAAAGCAATGAAGTAGACAAAGTGAGTCAAGTGTTTAAGAACAGTTGTCATTTGATTGATTTTTGAATATAT

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

AGTGAGTAAAGCAATGAAGTAGACA

58.24

ACTTCAATACTTTACTACATCTTGAAA

55.37

144

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GTGAGTAAAGCAATGAAGTAGACA

56.97

ACTTCAATACTTTACTACATCTTGAAA

55.37

143

PCR template sequence:

TGTTGTAGGATTTTTTTAAGATAGTGAGTAAAGCAATGAAGTAGACAAAGTGAGTCAAGTGTTTAAGAACAGTTGTCATTTGATTGATTTTTGAATATATGTAAGTATGAATTTTTACTAAGCAATTTATATTCTTAAATTTCAAGATGTAGTAAAGTATTGAAGTAATTGAATAAGAAAAAATAAACTAAATGGTATAT

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

16

Interacting miRNAs (#binding sites)

mmu-miR-1187(2), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-92a-3p(1), mmu-miR-203-3p(1), mmu-miR-25-3p(1), mmu-miR-24-3p(1), mmu-miR-411-3p(1), mmu-miR-194-5p(1), mmu-miR-425-5p(1), mmu-miR-297a-5p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-452-3p(1), mmu-miR-338-3p(1), mmu-miR-7a-1-3p(1)

siRNAs for circular RNA silencing
Junction sequence

TTTTTGAATATATGTAAGTATGAATT

siRNA sets

AATTCATACTTACATATAT, ATTCATACTTACATATATT, TTCATACTTACATATATTC

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

0.938724844

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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