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mmu_circItch_1743
Basic information of circular RNA
PanCircBase ID:
mmu_circItch_1743
mm39_Chr. Position ID:
chr2|155024077|155060007|+
Gene name:
Itch
Transcript:
ENSMUST00000029126.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
9,10,11,12,13,14,15,16,17,18,19,20,21,22,23
Exon/intron offsets:
0,1577,3272,7279,9968,17177,20049,21123,24135,26901,27829,28282,30179,30840,35833
Genomic length:
35930
Exon/intron sizes in nt:
196,96,175,70,85,129,73,72,89,160,134,141,121,105,97
Flanking exon/introns:
chr2:155022631-155024077|chr2:155060007-155062127
Splice length:
1743
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CTTCTGTCAATGGCTCACCATCCACGAATTCTGACAGTGATGGATCTAGTACAGGCTCCTTGCCACCAACAAATACAAATGTAAATACAAGTACATCTGAAGGAGCAACATCTGGATTAATAATTCCTCTTACTATATCTGGAGGCTCGGGCCCTAGGCCTCTGAATACTGTAAGCCAAGCTCCCCTACCACCTGGGTGGGAGCAGAGAGTAGACCAGCATGGGCGTGTTTACTATGTAGACCATGTTGAAAAGCGAACAACATGGGATAGACCAGAACCTCTACCTCCTGGCTGGGAACGGCGTGTGGACAATATGGGACGTATTTATTATGTTGATCATTTCACAAGAACCACAACATGGCAGAGGCCAACCTTGGAATCTGTCCGGAACTATGAACAGTGGCAGCTACAGCGTAGTCAGCTTCAGGGAGCAATGCAGCAGTTTAACCAGAGATTCATCTATGGGAATCAAGATTTGTTTGCTACATCACAAAACAAAGAATTTGATCCGCTTGGTCCGTTGCCCCCTGGATGGGAGAAGAGAACTGATAGCAACGGCAGAGTGTATTTTGTCAACCACAACACTCGGATTACTCAGTGGGAAGACCCCAGAAGCCAAGGTCAGTTAAATGAAAAGCCCTTACCAGAAGGCTGGGAAATGAGATTCACAGTGGATGGAATTCCATATTTTGTGGACCACAATAGAAGAGCAACTACTTATATAGATCCACGAACGGGAAAATCAGCCTTAGACAATGGGCCCCAGATAGCCTATGTGCGGGACTTCAAGGCAAAAGTTCAGTATTTCCGGTTCTGGTGCCAGCAACTGGCCATGCCACAGCATATAAAGATCACAGTGACAAGAAAAACATTGTTTGAGGATTCCTTTCAGCAGATCATGAGCTTCAGCCCGCAAGACCTGAGAAGACGTTTGTGGGTGATTTTCCCAGGAGAAGAAGGTTTAGATTATGGAGGTGTAGCAAGAGAATGGTTCTTTCTTTTGTCACATGAAGTGTTGAACCCAATGTATTGCCTGTTTGAATATGCAGGGAAGGATAACTACTGCCTGCAGATAAACCCCGCTTCTTACATCAATCCAGACCACCTGAAATACTTTCGTTTTATTGGCAGATTTATTGCCATGGCTCTGTTTCATGGGAAATTCATAGATACCGGATTTTCTTTACCATTCTATAAACGTATCCTGAATAAACCAGTTGGACTGAAGGATTTAGAATCTATTGATCCAGAATTTTATAATTCGCTCATCTGGGTTAAAGAAAACAACATTGAAGAATGTGGTTTGGAAATGTACTTCTCAGTTGATAAAGAAATTCTAGGTGAAATTAAGAGTCATGATTTGAAACCCAATGGTGGCAATATTCTTGTGACAGAAGAAAACAAGGAGGAATACATCAGGATGGTAGCTGAGTGGAGGTTGTCTCGAGGTGTTGAAGAACAGACACAAGCTTTCTTTGAGGGCTTTAATGAAATTCTTCCTCAGCAATATTTGCAATATTTTGATGCGAAGGAATTAGAGGTTCTTCTGTGTGGGATGCAGGAGATTGATTTGAATGACTGGCAGAGACATGCCATCTACCGCCACTACACCAGAACAAGCAAGCAGATCATGTGGTTTTGGCAGTTTGTTAAAGAAATTGATAATGAGAAGAGGATGAGACTTCTGCAGTTTGTTACTGGAACCTGCCGATTGCCAGTGGGAGGATTTGCTGACCTTATGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGGATGAGACTTCTGCAGT
58.18
ATTTGTTGGTGGCAAGGAGC
59.32
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGATGAGACTTCTGCAGTTTGT
59.93
ATTTGTTGGTGGCAAGGAGC
59.32
144
PCR template sequence:
CAGTTTGTTAAAGAAATTGATAATGAGAAGAGGATGAGACTTCTGCAGTTTGTTACTGGAACCTGCCGATTGCCAGTGGGAGGATTTGCTGACCTTATGGCTTCTGTCAATGGCTCACCATCCACGAATTCTGACAGTGATGGATCTAGTACAGGCTCCTTGCCACCAACAAATACAAATGTAAATACAAGTACATCTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
28
Interacting miRNAs (#binding sites)
mmu-miR-127-5p(2), mmu-miR-137-3p(1), 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-29b-1-5p(1), mmu-miR-22-3p(1), mmu-miR-98-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-802-5p(1), mmu-miR-377-3p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-335-3p(1), mmu-miR-669d-5p(1), mmu-miR-188-3p(1), mmu-miR-670-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTGACCTTATGGCTTCTGTCAATGG
siRNA sets
ATTGACAGAAGCCATAAGG, CATTGACAGAAGCCATAAG, TTGACAGAAGCCATAAGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCITCH_1743_ORF_1
0.7625
0.079278516
0.999999996
3171
ORF sequence:
ATGGGACGTATTTATTATGTTGATCATTTCACAAGAACCACAACATGGCAGAGGCCAACCTTGGAATCTGTCCGGAACTATGAACAGTGGCAGCTACAGCGTAGTCAGCTTCAGGGAGCAATGCAGCAGTTTAACCAGAGATTCATCTATGGGAATCAAGATTTGTTTGCTACATCACAAAACAAAGAATTTGATCCGCTTGGTCCGTTGCCCCCTGGATGGGAGAAGAGAACTGATAGCAACGGCAGAGTGTATTTTGTCAACCACAACACTCGGATTACTCAGTGGGAAGACCCCAGAAGCCAAGGTCAGTTAAATGAAAAGCCCTTACCAGAAGGCTGGGAAATGAGATTCACAGTGGATGGAATTCCATATTTTGTGGACCACAATAGAAGAGCAACTACTTATATAGATCCACGAACGGGAAAATCAGCCTTAGACAATGGGCCCCAGATAGCCTATGTGCGGGACTTCAAGGCAAAAGTTCAGTATTTCCGGTTCTGGTGCCAGCAACTGGCCATGCCACAGCATATAAAGATCACAGTGACAAGAAAAACATTGTTTGAGGATTCCTTTCAGCAGATCATGAGCTTCAGCCCGCAAGACCTGAGAAGACGTTTGTGGGTGATTTTCCCAGGAGAAGAAGGTTTAGATTATGGAGGTGTAGCAAGAGAATGGTTCTTTCTTTTGTCACATGAAGTGTTGAACCCAATGTATTGCCTGTTTGAATATGCAGGGAAGGATAACTACTGCCTGCAGATAAACCCCGCTTCTTACATCAATCCAGACCACCTGAAATACTTTCGTTTTATTGGCAGATTTATTGCCATGGCTCTGTTTCATGGGAAATTCATAGATACCGGATTTTCTTTACCATTCTATAAACGTATCCTGAATAAACCAGTTGGACTGAAGGATTTAGAATCTATTGATCCAGAATTTTATAATTCGCTCATCTGGGTTAAAGAAAACAACATTGAAGAATGTGGTTTGGAAATGTACTTCTCAGTTGATAAAGAAATTCTAGGTGAAATTAAGAGTCATGATTTGAAACCCAATGGTGGCAATATTCTTGTGACAGAAGAAAACAAGGAGGAATACATCAGGATGGTAGCTGAGTGGAGGTTGTCTCGAGGTGTTGAAGAACAGACACAAGCTTTCTTTGAGGGCTTTAATGAAATTCTTCCTCAGCAATATTTGCAATATTTTGATGCGAAGGAATTAGAGGTTCTTCTGTGTGGGATGCAGGAGATTGATTTGAATGACTGGCAGAGACATGCCATCTACCGCCACTACACCAGAACAAGCAAGCAGATCATGTGGTTTTGGCAGTTTGTTAAAGAAATTGATAATGAGAAGAGGATGAGACTTCTGCAGTTTGTTACTGGAACCTGCCGATTGCCAGTGGGAGGATTTGCTGACCTTATGGCTTCTGTCAATGGCTCACCATCCACGAATTCTGACAGTGATGGATCTAGTACAGGCTCCTTGCCACCAACAAATACAAATGTAAATACAAGTACATCTGAAGGAGCAACATCTGGATTAATAATTCCTCTTACTATATCTGGAGGCTCGGGCCCTAGGCCTCTGAATACTGTAAGCCAAGCTCCCCTACCACCTGGGTGGGAGCAGAGAGTAGACCAGCATGGGCGTGTTTACTATGTAGACCATGTTGAAAAGCGAACAACATGGGATAGACCAGAACCTCTACCTCCTGGCTGGGAACGGCGTGTGGACAATATGGGACGTATTTATTATGTTGATCATTTCACAAGAACCACAACATGGCAGAGGCCAACCTTGGAATCTGTCCGGAACTATGAACAGTGGCAGCTACAGCGTAGTCAGCTTCAGGGAGCAATGCAGCAGTTTAACCAGAGATTCATCTATGGGAATCAAGATTTGTTTGCTACATCACAAAACAAAGAATTTGATCCGCTTGGTCCGTTGCCCCCTGGATGGGAGAAGAGAACTGATAGCAACGGCAGAGTGTATTTTGTCAACCACAACACTCGGATTACTCAGTGGGAAGACCCCAGAAGCCAAGGTCAGTTAAATGAAAAGCCCTTACCAGAAGGCTGGGAAATGAGATTCACAGTGGATGGAATTCCATATTTTGTGGACCACAATAGAAGAGCAACTACTTATATAGATCCACGAACGGGAAAATCAGCCTTAGACAATGGGCCCCAGATAGCCTATGTGCGGGACTTCAAGGCAAAAGTTCAGTATTTCCGGTTCTGGTGCCAGCAACTGGCCATGCCACAGCATATAAAGATCACAGTGACAAGAAAAACATTGTTTGAGGATTCCTTTCAGCAGATCATGAGCTTCAGCCCGCAAGACCTGAGAAGACGTTTGTGGGTGATTTTCCCAGGAGAAGAAGGTTTAGATTATGGAGGTGTAGCAAGAGAATGGTTCTTTCTTTTGTCACATGAAGTGTTGAACCCAATGTATTGCCTGTTTGAATATGCAGGGAAGGATAACTACTGCCTGCAGATAAACCCCGCTTCTTACATCAATCCAGACCACCTGAAATACTTTCGTTTTATTGGCAGATTTATTGCCATGGCTCTGTTTCATGGGAAATTCATAGATACCGGATTTTCTTTACCATTCTATAAACGTATCCTGAATAAACCAGTTGGACTGAAGGATTTAGAATCTATTGATCCAGAATTTTATAATTCGCTCATCTGGGTTAAAGAAAACAACATTGAAGAATGTGGTTTGGAAATGTACTTCTCAGTTGATAAAGAAATTCTAGGTGAAATTAAGAGTCATGATTTGAAACCCAATGGTGGCAATATTCTTGTGACAGAAGAAAACAAGGAGGAATACATCAGGATGGTAGCTGAGTGGAGGTTGTCTCGAGGTGTTGAAGAACAGACACAAGCTTTCTTTGAGGGCTTTAATGAAATTCTTCCTCAGCAATATTTGCAATATTTTGATGCGAAGGAATTAGAGGTTCTTCTGTGTGGGATGCAGGAGATTGATTTGAATGACTGGCAGAGACATGCCATCTACCGCCACTACACCAGAACAAGCAAGCAGATCATGTGGTTTTGGCAGTTTGTTAAAGAAATTGATAATGAGAAGAGGATGAGACTTCTGCAGTTTGTTACTGGAACCTGCCGATTGCCAGTGGGAGGATTTGCTGACCTTATG
Peptide sequence:
MGRIYYVDHFTRTTTWQRPTLESVRNYEQWQLQRSQLQGAMQQFNQRFIYGNQDLFATSQNKEFDPLGPLPPGWEKRTDSNGRVYFVNHNTRITQWEDPRSQGQLNEKPLPEGWEMRFTVDGIPYFVDHNRRATTYIDPRTGKSALDNGPQIAYVRDFKAKVQYFRFWCQQLAMPQHIKITVTRKTLFEDSFQQIMSFSPQDLRRRLWVIFPGEEGLDYGGVAREWFFLLSHEVLNPMYCLFEYAGKDNYCLQINPASYINPDHLKYFRFIGRFIAMALFHGKFIDTGFSLPFYKRILNKPVGLKDLESIDPEFYNSLIWVKENNIEECGLEMYFSVDKEILGEIKSHDLKPNGGNILVTEENKEEYIRMVAEWRLSRGVEEQTQAFFEGFNEILPQQYLQYFDAKELEVLLCGMQEIDLNDWQRHAIYRHYTRTSKQIMWFWQFVKEIDNEKRMRLLQFVTGTCRLPVGGFADLMASVNGSPSTNSDSDGSSTGSLPPTNTNVNTSTSEGATSGLIIPLTISGGSGPRPLNTVSQAPLPPGWEQRVDQHGRVYYVDHVEKRTTWDRPEPLPPGWERRVDNMGRIYYVDHFTRTTTWQRPTLESVRNYEQWQLQRSQLQGAMQQFNQRFIYGNQDLFATSQNKEFDPLGPLPPGWEKRTDSNGRVYFVNHNTRITQWEDPRSQGQLNEKPLPEGWEMRFTVDGIPYFVDHNRRATTYIDPRTGKSALDNGPQIAYVRDFKAKVQYFRFWCQQLAMPQHIKITVTRKTLFEDSFQQIMSFSPQDLRRRLWVIFPGEEGLDYGGVAREWFFLLSHEVLNPMYCLFEYAGKDNYCLQINPASYINPDHLKYFRFIGRFIAMALFHGKFIDTGFSLPFYKRILNKPVGLKDLESIDPEFYNSLIWVKENNIEECGLEMYFSVDKEILGEIKSHDLKPNGGNILVTEENKEEYIRMVAEWRLSRGVEEQTQAFFEGFNEILPQQYLQYFDAKELEVLLCGMQEIDLNDWQRHAIYRHYTRTSKQIMWFWQFVKEIDNEKRMRLLQFVTGTCRLPVGGFADLM
IRESfinder result
IRESfinder score
0.699165811
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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