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mmu_circEea1_525
Basic information of circular RNA
PanCircBase ID:
mmu_circEea1_525
mm39_Chr. Position ID:
chr10|95825423|95831552|+
Gene name:
Eea1
Transcript:
ENSMUST00000218088.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
4,5,6,7,8,9
Exon/intron offsets:
0,693,838,3862,5323,6007
Genomic length:
6129
Exon/intron sizes in nt:
128,55,66,40,114,122
Flanking exon/introns:
chr10:95814148-95825423|chr10:95831552-95832798
Splice length:
525
Other database IDs:
circBase: mmu_circ_0002602, CIRCpedia: MMU_CIRCpedia_35233, circAtlas: mmu-Eea1_0010
Human Ortholog IDs:
Mature spliced Sequence:
GGTTTCATATGTCCCCAGTGTATGAAATCCCTTGGCTCTGCTGATGAGCTTTTCAAGCACTATCAGGCCGTTCATGATGCTGGTAATGACTCGGGTCATGGTGGAGAGGCCGGTCTTGCTTTGACACGAGATGACATAACACTACTCAGACAAGAGGTCCAAGACCTACAGGCCTCACTTAAGGAAGAAAAATGGTACTCAGAAGAATTAAAGAAAGAATTAGAAAAATATCAAGGGCTACAGCAGCAAGAGGCTAAATCTGATGGATTGGTGACTGATTCGTCAGCAGAGCTACAGGCTTTAGAGCAACAATTAGAAGAAGCACAAACAGAGAATTTTAATATTAAGCAAATGAAAGATCTGTTTGAACAGAAAGCAGCCCAACTTGCTACTGAAATTGCAGATATAAAGTCAAAATATGATGAAGAAAAGAGTCTCCGAGCAGCTGCTGAACAAAAAGTGACACATTTGACAGAAGACTTAAACAAACAGACAACTGTAATTCAAGATCTGAAAACTGAACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGAGTCTCCGAGCAGCTG
59.75
AGCATCATGAACGGCCTGAT
59.82
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGAGTCTCCGAGCAGCTG
59.75
CATCAGCAGAGCCAAGGGAT
59.82
143
PCR template sequence:
AGAAAAGAGTCTCCGAGCAGCTGCTGAACAAAAAGTGACACATTTGACAGAAGACTTAAACAAACAGACAACTGTAATTCAAGATCTGAAAACTGAACTGGGTTTCATATGTCCCCAGTGTATGAAATCCCTTGGCTCTGCTGATGAGCTTTTCAAGCACTATCAGGCCGTTCATGATGCTGGTAATGACTCGGGTCATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-218-5p(1), mmu-miR-541-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAAACTGAACTGGGTTTCATATGTC
siRNA sets
CATATGAAACCCAGTTCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEEA1_525_ORF_1
1.211
0.130693456
0.992926795
1029
ORF sequence:
ATGAAATCCCTTGGCTCTGCTGATGAGCTTTTCAAGCACTATCAGGCCGTTCATGATGCTGGTAATGACTCGGGTCATGGTGGAGAGGCCGGTCTTGCTTTGACACGAGATGACATAACACTACTCAGACAAGAGGTCCAAGACCTACAGGCCTCACTTAAGGAAGAAAAATGGTACTCAGAAGAATTAAAGAAAGAATTAGAAAAATATCAAGGGCTACAGCAGCAAGAGGCTAAATCTGATGGATTGGTGACTGATTCGTCAGCAGAGCTACAGGCTTTAGAGCAACAATTAGAAGAAGCACAAACAGAGAATTTTAATATTAAGCAAATGAAAGATCTGTTTGAACAGAAAGCAGCCCAACTTGCTACTGAAATTGCAGATATAAAGTCAAAATATGATGAAGAAAAGAGTCTCCGAGCAGCTGCTGAACAAAAAGTGACACATTTGACAGAAGACTTAAACAAACAGACAACTGTAATTCAAGATCTGAAAACTGAACTGGGTTTCATATGTCCCCAGTGTATGAAATCCCTTGGCTCTGCTGATGAGCTTTTCAAGCACTATCAGGCCGTTCATGATGCTGGTAATGACTCGGGTCATGGTGGAGAGGCCGGTCTTGCTTTGACACGAGATGACATAACACTACTCAGACAAGAGGTCCAAGACCTACAGGCCTCACTTAAGGAAGAAAAATGGTACTCAGAAGAATTAAAGAAAGAATTAGAAAAATATCAAGGGCTACAGCAGCAAGAGGCTAAATCTGATGGATTGGTGACTGATTCGTCAGCAGAGCTACAGGCTTTAGAGCAACAATTAGAAGAAGCACAAACAGAGAATTTTAATATTAAGCAAATGAAAGATCTGTTTGAACAGAAAGCAGCCCAACTTGCTACTGAAATTGCAGATATAAAGTCAAAATATGATGAAGAAAAGAGTCTCCGAGCAGCTGCTGAACAAAAAGTGACACATTTGACAGAAGACTTAAACAAACAGACAACTGTAATTCAAGATCTGAAAACTGAACTG
Peptide sequence:
MKSLGSADELFKHYQAVHDAGNDSGHGGEAGLALTRDDITLLRQEVQDLQASLKEEKWYSEELKKELEKYQGLQQQEAKSDGLVTDSSAELQALEQQLEEAQTENFNIKQMKDLFEQKAAQLATEIADIKSKYDEEKSLRAAAEQKVTHLTEDLNKQTTVIQDLKTELGFICPQCMKSLGSADELFKHYQAVHDAGNDSGHGGEAGLALTRDDITLLRQEVQDLQASLKEEKWYSEELKKELEKYQGLQQQEAKSDGLVTDSSAELQALEQQLEEAQTENFNIKQMKDLFEQKAAQLATEIADIKSKYDEEKSLRAAAEQKVTHLTEDLNKQTTVIQDLKTEL
IRESfinder result
IRESfinder score
0.539818312
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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