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mmu_circ4933427D14Rik_1799
Basic information of circular RNA
PanCircBase ID:
mmu_circ4933427D14Rik_1799
mm39_Chr. Position ID:
chr11|72069230|72093380|-
Gene name:
4933427D14Rik
Transcript:
ENSMUST00000142530.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,1998,11143,12873,13014,16155,17378,19958,24007
Genomic length:
24150
Exon/intron sizes in nt:
167,224,211,67,216,63,107,601,143
Flanking exon/introns:
chr11:72067606-72069230|chr11:72093380-72098021
Splice length:
1799
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAAGATTTGCCTGATAACTAGGCAGCCGCTCATGTTCATCATCTGACCTGATGGGACCAAGCCAGCCAGCTTCTACATGTGTTCATCTAGCACCCAGTCTCCAACTGGATGCCATGAGTGACCCCAGGAACCTTCAGCCCCAGAACCAGCTGCAATTTAATAGGAATGTTCCTACAAATCCCAGCAACTTGGCAGTCCGGTACTCTTGCCCACATGGAATTAAAATTGAAAAACTGAAACACTCATACAATGAATTGAATCATGGTAAAGACTTGGATTTTAAAGCTGGAAATGAATTAAGCAGTTCTGTCTCATTTTCTGTCATATCAGAAGAGAGGCTTAGCTATGCTGTCCACCTAGCCAAGAGAGATGTAAAACGAAGACAATTTGAAGAACACGTGAAAGATCATCTCAGAAGTCTGCCCCATAGCTCTCACAAAGGTATGCACACCAAGGTGGAAAGGAAGGACTCCAAGAGTCAGGATGTCTGTCATTGCAGCCACCAGCCGTCCAGAGTAAGCCTCTCCAGCTCGGGCGCTAAGGTGTATGTGTACACATCTCAGCCAGGACGAGCTGATCTTACTGTGCCAAATTCACCACCTACCCATGATCCAGGACTTCAGCCGCAACCCAGAATAGAGGAGAACAAAAACCTGTGGGAACAGAAAGGCCTGCTAGAAGTTCAGCGACTCCAAAAGGAATTGAGTGGTTGTATCCGTAAGATAGAAGCACTAACGAAAAAAGATAGACTAGAAGAGGCTTTGGATCCAGATGAAGAGCATCGAATCCGAGTCAGGAGACAGGAGCAAGCCGTGCGCTGTGCCCGCATGCTCTACGTTCTTCAGCAGCAGGTAAAAGAAATCCAGGAAGAATTGGATAAATTGAGTCCACAAAAAATTAAACATACTAAGAAGTCATGGGCAGTGTCTAGGCTGGCAGCCGCTCATCGAGCAGCCATCCGGGCCTTGCAAGTGTTTGTCACTCAGTTTACTGACCGAGGGGAGCACCCAGTTCCTGCTCGGTGTAGGGAGCTGGGCAGCCTTATTCGTCAGCTGTCGCTGTGTTCCGCCAAGCTGGATGCTGATCCTTCTGTGCCAGACGTGGTCATAGACATCTTGCAGCAAATCGAGTTCCAGTCAGTGAGACCATAAGGCAAAACTACTGCCTTGCCTGGTAACTTGGTGCTTTGCAAAGAACGCTTTGGAGTCTCTCCTGGAAAAGAAATTGTCACCTAAAAAGGCAAAGAAATGTTTCACAGAAATTCGGAGCAGATTTCCTGTTGGTAGCCAAAAGATCTTAGAGAGATGGCCAACTGTACTGCCCAAAAGTGAGAGGAGACCCTTGGTCACAAAGGAGACATTCCCACAGGAAACCAGTCGACCTCCTGTGGCAAAGAGGCTTCTTGCAGCTATGTGTCAGCCTGATGGGGAGCTTCAGAGGCTGGAGAGTGAACCCGATGTGCTGGATGCACATCTTCTTCCAGAAGAAGCCCCTCGTATAGAGGACAATGGTACAGACTTCAAAGACGGAACATTAACCCCAGCCAAACCACAGGCAGTGAGAAGGAAGGCTTTGACAGGGTCCATGCCGATTAGGAAGAAAGATACTGTGGAGTCAGCCAGACCACAGCAGGGACTCCACATAGCTGAAAGAAATCGACCAAACCAACCTTACAGCAAAAGCAGGTTGCAGCAGACAACAGTGTCATCCAGATTAAAAATGAACCGACAGCCTATGAAAGACCATAGGGCTCCTTGGATACCTCCAAACCCCACATCCCCACCAGCCTCTCCTAAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGACCATAGGGCTCCTTGGA
59.66
ACATGTAGAAGCTGGCTGGC
60.39
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCGACAGCCTATGAAAGACCA
59.79
CATGTAGAAGCTGGCTGGCT
60.11
154
PCR template sequence:
CAGTGTCATCCAGATTAAAAATGAACCGACAGCCTATGAAAGACCATAGGGCTCCTTGGATACCTCCAAACCCCACATCCCCACCAGCCTCTCCTAAATGGAAGATTTGCCTGATAACTAGGCAGCCGCTCATGTTCATCATCTGACCTGATGGGACCAAGCCAGCCAGCTTCTACATGTGTTCATCTAGCACCCAGTCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-370-3p(2), mmu-miR-140-5p(1), mmu-miR-34c-5p(1), mmu-miR-31-5p(1), mmu-miR-138-5p(1), mmu-miR-185-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-666-5p(1), mmu-miR-540-3p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
CCTCTCCTAAATGGAAGATTTGCCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC4933427D14RIK_1799_ORF_3
0.8631
0.105103926
0.461746207
435
ORF sequence:
ATGTGTCAGCCTGATGGGGAGCTTCAGAGGCTGGAGAGTGAACCCGATGTGCTGGATGCACATCTTCTTCCAGAAGAAGCCCCTCGTATAGAGGACAATGGTACAGACTTCAAAGACGGAACATTAACCCCAGCCAAACCACAGGCAGTGAGAAGGAAGGCTTTGACAGGGTCCATGCCGATTAGGAAGAAAGATACTGTGGAGTCAGCCAGACCACAGCAGGGACTCCACATAGCTGAAAGAAATCGACCAAACCAACCTTACAGCAAAAGCAGGTTGCAGCAGACAACAGTGTCATCCAGATTAAAAATGAACCGACAGCCTATGAAAGACCATAGGGCTCCTTGGATACCTCCAAACCCCACATCCCCACCAGCCTCTCCTAAATGGAAGATTTGCCTGATAACTAGGCAGCCGCTCATGTTCATCATCTGA
Peptide sequence:
MCQPDGELQRLESEPDVLDAHLLPEEAPRIEDNGTDFKDGTLTPAKPQAVRRKALTGSMPIRKKDTVESARPQQGLHIAERNRPNQPYSKSRLQQTTVSSRLKMNRQPMKDHRAPWIPPNPTSPPASPKWKICLITRQPLMFII
IRESfinder result
IRESfinder score
0.548565051
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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