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mmu_circErcc3_1076
Basic information of circular RNA
PanCircBase ID:
mmu_circErcc3_1076
mm39_Chr. Position ID:
chr18|32378804|32390445|+
Gene name:
Ercc3
Transcript:
ENSMUST00000025241.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,7,8,9,10
Exon/intron offsets:
0,815,2411,8329,11438
Genomic length:
11641
Exon/intron sizes in nt:
168,205,315,185,203
Flanking exon/introns:
chr18:32378677-32378804|chr18:32390445-32394354
Splice length:
1076
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATTTCTAAGACGGCGGCGGAAGGCAGTGGCGGGCCTTCTACTTCGCAGGGGGTAGATGCACAGGCCACGTCTGACATACCCAAAGACCTGTTTGATTTTTATGAGCAAATGGACAAGGATGAGGAGGAGGAGGAAGAGACACAGACAGTGTCCTTTGAAGTTAAGCAGGAAATGATCGAGGAGCTGCAGAAGCGCTGCATCTGCTTAGAGTACCCGCTGCTGGCAGAGTATGACTTCCGGAATGACACTCTCAATCCTGACATCAACATTGACCTGAAGCCCACAGCCGTACTCAGACCCTATCAGGAGAAGAGCCTGCGGAAGATGTTTGGGAACGGACGAGCACGCTCAGGAGTCATTGTTCTTCCCTGTGGTGCTGGGAAGTCCCTGGTCGGCGTGACTGCCGCATGCACTGTCAGAAAGCGCTGTCTCGTCCTGGGCAACTCGGCTGTGTCTGTGGAGCAGTGGAAAGCCCAGTTTAAGATGTGGTCAACCATCGATGACAGCCAGATCTGCCGCTTCACCTCAGATGCCAAGGACAAGCCCATCGGCTGCTCCGTTGCCATTAGCACTTACTCTATGCTGGGCCACACCACCAAAAGGTCCTGGGAAGCTGAGAGAGTCATGGAGTGGCTCAAAACCCAGGAGTGGGGCCTCATGATCCTTGACGAGGTGCACACCATTCCAGCCAGGATGTTCCGGCGGGTTCTGACTATTGTGCAGGCGCACTGTAAGCTTGGTTTGACTGCAACCCTTGTCCGGGAAGATGACAAAATTGTTGACTTAAATTTCCTGATTGGGCCCAAGCTCTATGAAGCCAACTGGATGGAGCTGCAGAACAATGGGTACATCGCTAAAGTCCAGTGTGCTGAGGTTTGGTGCCCGATGTCTCCCGAGTTCTACCGAGAGTATGTGGCAATCAAAACAAAGAAACGGATCCTGTTGTACACCATGAATCCCAACAAATTCAGAGCCTGCCAGTTTCTGATCAAGTTTCATGAAAGGAGGAATGACAAGATTATTGTCTTTGCTGACAACGTATTTGCCTTGAAGGAATATGCCATTCGGCTGAACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCAGTTTCTGATCAAGTTTCA
57.16
TATGTCAGACGTGGCCTGTG
59.75
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCAGTTTCTGATCAAGTTTCA
57.16
GTATGTCAGACGTGGCCTGT
59.75
179
PCR template sequence:
GCCAGTTTCTGATCAAGTTTCATGAAAGGAGGAATGACAAGATTATTGTCTTTGCTGACAACGTATTTGCCTTGAAGGAATATGCCATTCGGCTGAACAAATTTCTAAGACGGCGGCGGAAGGCAGTGGCGGGCCTTCTACTTCGCAGGGGGTAGATGCACAGGCCACGTCTGACATACCCAAAGACCTGTTTGATTTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-29b-3p(1), mmu-miR-152-3p(1), mmu-miR-503-5p(1), mmu-miR-501-3p(1), mmu-miR-362-5p(1), mmu-miR-383-5p(1), mmu-miR-207(1), mmu-miR-484(1), mmu-miR-697(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCGGCTGAACAAATTTCTAAGACGG
siRNA sets
TTAGAAATTTGTTCAGCCG, TCTTAGAAATTTGTTCAGC, CTTAGAAATTTGTTCAGCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCERCC3_1076_ORF_1
1.2767
0.380860955
0.99757693
1023
ORF sequence:
ATGGACAAGGATGAGGAGGAGGAGGAAGAGACACAGACAGTGTCCTTTGAAGTTAAGCAGGAAATGATCGAGGAGCTGCAGAAGCGCTGCATCTGCTTAGAGTACCCGCTGCTGGCAGAGTATGACTTCCGGAATGACACTCTCAATCCTGACATCAACATTGACCTGAAGCCCACAGCCGTACTCAGACCCTATCAGGAGAAGAGCCTGCGGAAGATGTTTGGGAACGGACGAGCACGCTCAGGAGTCATTGTTCTTCCCTGTGGTGCTGGGAAGTCCCTGGTCGGCGTGACTGCCGCATGCACTGTCAGAAAGCGCTGTCTCGTCCTGGGCAACTCGGCTGTGTCTGTGGAGCAGTGGAAAGCCCAGTTTAAGATGTGGTCAACCATCGATGACAGCCAGATCTGCCGCTTCACCTCAGATGCCAAGGACAAGCCCATCGGCTGCTCCGTTGCCATTAGCACTTACTCTATGCTGGGCCACACCACCAAAAGGTCCTGGGAAGCTGAGAGAGTCATGGAGTGGCTCAAAACCCAGGAGTGGGGCCTCATGATCCTTGACGAGGTGCACACCATTCCAGCCAGGATGTTCCGGCGGGTTCTGACTATTGTGCAGGCGCACTGTAAGCTTGGTTTGACTGCAACCCTTGTCCGGGAAGATGACAAAATTGTTGACTTAAATTTCCTGATTGGGCCCAAGCTCTATGAAGCCAACTGGATGGAGCTGCAGAACAATGGGTACATCGCTAAAGTCCAGTGTGCTGAGGTTTGGTGCCCGATGTCTCCCGAGTTCTACCGAGAGTATGTGGCAATCAAAACAAAGAAACGGATCCTGTTGTACACCATGAATCCCAACAAATTCAGAGCCTGCCAGTTTCTGATCAAGTTTCATGAAAGGAGGAATGACAAGATTATTGTCTTTGCTGACAACGTATTTGCCTTGAAGGAATATGCCATTCGGCTGAACAAATTTCTAAGACGGCGGCGGAAGGCAGTGGCGGGCCTTCTACTTCGCAGGGGGTAG
Peptide sequence:
MDKDEEEEEETQTVSFEVKQEMIEELQKRCICLEYPLLAEYDFRNDTLNPDINIDLKPTAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTAACTVRKRCLVLGNSAVSVEQWKAQFKMWSTIDDSQICRFTSDAKDKPIGCSVAISTYSMLGHTTKRSWEAERVMEWLKTQEWGLMILDEVHTIPARMFRRVLTIVQAHCKLGLTATLVREDDKIVDLNFLIGPKLYEANWMELQNNGYIAKVQCAEVWCPMSPEFYREYVAIKTKKRILLYTMNPNKFRACQFLIKFHERRNDKIIVFADNVFALKEYAIRLNKFLRRRRKAVAGLLLRRG
IRESfinder result
IRESfinder score
0.323078396
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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