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mmu_circItch_789
Basic information of circular RNA
PanCircBase ID:
mmu_circItch_789
mm39_Chr. Position ID:
chr2|155025654|155048301|+
Gene name:
Itch
Transcript:
ENSMUST00000029126.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
10,11,12,13,14,15,16,17
Exon/intron offsets:
0,1695,5702,8391,15600,18472,19546,22558
Genomic length:
22647
Exon/intron sizes in nt:
96,175,70,85,129,73,72,89
Flanking exon/introns:
chr2:155024273-155025654|chr2:155048301-155050978
Splice length:
789
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGGGAGCAGAGAGTAGACCAGCATGGGCGTGTTTACTATGTAGACCATGTTGAAAAGCGAACAACATGGGATAGACCAGAACCTCTACCTCCTGGCTGGGAACGGCGTGTGGACAATATGGGACGTATTTATTATGTTGATCATTTCACAAGAACCACAACATGGCAGAGGCCAACCTTGGAATCTGTCCGGAACTATGAACAGTGGCAGCTACAGCGTAGTCAGCTTCAGGGAGCAATGCAGCAGTTTAACCAGAGATTCATCTATGGGAATCAAGATTTGTTTGCTACATCACAAAACAAAGAATTTGATCCGCTTGGTCCGTTGCCCCCTGGATGGGAGAAGAGAACTGATAGCAACGGCAGAGTGTATTTTGTCAACCACAACACTCGGATTACTCAGTGGGAAGACCCCAGAAGCCAAGGTCAGTTAAATGAAAAGCCCTTACCAGAAGGCTGGGAAATGAGATTCACAGTGGATGGAATTCCATATTTTGTGGACCACAATAGAAGAGCAACTACTTATATAGATCCACGAACGGGAAAATCAGCCTTAGACAATGGGCCCCAGATAGCCTATGTGCGGGACTTCAAGGCAAAAGTTCAGTATTTCCGGTTCTGGTGCCAGCAACTGGCCATGCCACAGCATATAAAGATCACAGTGACAAGAAAAACATTGTTTGAGGATTCCTTTCAGCAGATCATGAGCTTCAGCCCGCAAGACCTGAGAAGACGTTTGTGGGTGATTTTCCCAGGAGAAGAAGGTTTAGATTATGGAGGTGTAGCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCAAGACCTGAGAAGACGT
60.04
CCAGCCAGGAGGTAGAGGTT
60.62
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCAAGACCTGAGAAGACGT
60.04
AGCCAGGAGGTAGAGGTTCT
59.29
171
PCR template sequence:
CCTTTCAGCAGATCATGAGCTTCAGCCCGCAAGACCTGAGAAGACGTTTGTGGGTGATTTTCCCAGGAGAAGAAGGTTTAGATTATGGAGGTGTAGCAAGGTGGGAGCAGAGAGTAGACCAGCATGGGCGTGTTTACTATGTAGACCATGTTGAAAAGCGAACAACATGGGATAGACCAGAACCTCTACCTCCTGGCTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
20
Interacting miRNAs (#binding sites)
mmu-miR-127-5p(2), mmu-miR-9-5p(1), mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-30e-5p(1), mmu-let-7c-5p(1), mmu-miR-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-203-3p(1), mmu-miR-30d-5p(1), mmu-let-7d-5p(1), mmu-miR-30b-5p(1), mmu-miR-431-5p(1), mmu-miR-22-3p(1), mmu-miR-98-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-670-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGGTGTAGCAAGGTGGGAGCAGAGA
siRNA sets
TCTCTGCTCCCACCTTGCT, CTCCCACCTTGCTACACCT, GCTCCCACCTTGCTACACC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCITCH_789_ORF_1
0.5769
0.078613332
0.998688964
1458
ORF sequence:
ATGGGACGTATTTATTATGTTGATCATTTCACAAGAACCACAACATGGCAGAGGCCAACCTTGGAATCTGTCCGGAACTATGAACAGTGGCAGCTACAGCGTAGTCAGCTTCAGGGAGCAATGCAGCAGTTTAACCAGAGATTCATCTATGGGAATCAAGATTTGTTTGCTACATCACAAAACAAAGAATTTGATCCGCTTGGTCCGTTGCCCCCTGGATGGGAGAAGAGAACTGATAGCAACGGCAGAGTGTATTTTGTCAACCACAACACTCGGATTACTCAGTGGGAAGACCCCAGAAGCCAAGGTCAGTTAAATGAAAAGCCCTTACCAGAAGGCTGGGAAATGAGATTCACAGTGGATGGAATTCCATATTTTGTGGACCACAATAGAAGAGCAACTACTTATATAGATCCACGAACGGGAAAATCAGCCTTAGACAATGGGCCCCAGATAGCCTATGTGCGGGACTTCAAGGCAAAAGTTCAGTATTTCCGGTTCTGGTGCCAGCAACTGGCCATGCCACAGCATATAAAGATCACAGTGACAAGAAAAACATTGTTTGAGGATTCCTTTCAGCAGATCATGAGCTTCAGCCCGCAAGACCTGAGAAGACGTTTGTGGGTGATTTTCCCAGGAGAAGAAGGTTTAGATTATGGAGGTGTAGCAAGGTGGGAGCAGAGAGTAGACCAGCATGGGCGTGTTTACTATGTAGACCATGTTGAAAAGCGAACAACATGGGATAGACCAGAACCTCTACCTCCTGGCTGGGAACGGCGTGTGGACAATATGGGACGTATTTATTATGTTGATCATTTCACAAGAACCACAACATGGCAGAGGCCAACCTTGGAATCTGTCCGGAACTATGAACAGTGGCAGCTACAGCGTAGTCAGCTTCAGGGAGCAATGCAGCAGTTTAACCAGAGATTCATCTATGGGAATCAAGATTTGTTTGCTACATCACAAAACAAAGAATTTGATCCGCTTGGTCCGTTGCCCCCTGGATGGGAGAAGAGAACTGATAGCAACGGCAGAGTGTATTTTGTCAACCACAACACTCGGATTACTCAGTGGGAAGACCCCAGAAGCCAAGGTCAGTTAAATGAAAAGCCCTTACCAGAAGGCTGGGAAATGAGATTCACAGTGGATGGAATTCCATATTTTGTGGACCACAATAGAAGAGCAACTACTTATATAGATCCACGAACGGGAAAATCAGCCTTAGACAATGGGCCCCAGATAGCCTATGTGCGGGACTTCAAGGCAAAAGTTCAGTATTTCCGGTTCTGGTGCCAGCAACTGGCCATGCCACAGCATATAAAGATCACAGTGACAAGAAAAACATTGTTTGAGGATTCCTTTCAGCAGATCATGAGCTTCAGCCCGCAAGACCTGAGAAGACGTTTGTGGGTGATTTTCCCAGGAGAAGAAGGTTTAGATTATGGAGGTGTAGCA
Peptide sequence:
MGRIYYVDHFTRTTTWQRPTLESVRNYEQWQLQRSQLQGAMQQFNQRFIYGNQDLFATSQNKEFDPLGPLPPGWEKRTDSNGRVYFVNHNTRITQWEDPRSQGQLNEKPLPEGWEMRFTVDGIPYFVDHNRRATTYIDPRTGKSALDNGPQIAYVRDFKAKVQYFRFWCQQLAMPQHIKITVTRKTLFEDSFQQIMSFSPQDLRRRLWVIFPGEEGLDYGGVARWEQRVDQHGRVYYVDHVEKRTTWDRPEPLPPGWERRVDNMGRIYYVDHFTRTTTWQRPTLESVRNYEQWQLQRSQLQGAMQQFNQRFIYGNQDLFATSQNKEFDPLGPLPPGWEKRTDSNGRVYFVNHNTRITQWEDPRSQGQLNEKPLPEGWEMRFTVDGIPYFVDHNRRATTYIDPRTGKSALDNGPQIAYVRDFKAKVQYFRFWCQQLAMPQHIKITVTRKTLFEDSFQQIMSFSPQDLRRRLWVIFPGEEGLDYGGVA
IRESfinder result
IRESfinder score
0.606978601
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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