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mmu_circPard3b_1702
Basic information of circular RNA
PanCircBase ID:
mmu_circPard3b_1702
mm39_Chr. Position ID:
chr1|62049465|62255714|+
Gene name:
Pard3b
Transcript:
ENSMUST00000075374.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
3,4,5,6,7,8,9,10,11,12,13
Exon/intron offsets:
0,66078,134540,143626,149128,150803,153773,156047,188270,201227,206116
Genomic length:
206249
Exon/intron sizes in nt:
17,21,10,89,87,12,63,50,00,00,00,00,00,00,000
Flanking exon/introns:
chr1:61807208-62049465|chr1:62255714-62269337
Splice length:
1702
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTGATTGCTGTGTTTGACGAACAAGAGCCACTCCAAAAGACTGAGAGCCCCGGTGGAAACCCTGCGGATCGGCAGAGCCCAGATGCTTTCGAGACAGAAGTGGCTGCCCAACTGGCTGCATTTAAACCTGTCGGTGGGGAAATCGTAGTAACCCCTTCTGCTCTGAAGTTAGGCACTCCACTGCTGGTTAGGAGAAGCAGTGACCCAGCACCAGGGCCCCATGCTGATGCCCAGCCAAGCACTGCAAGCCTGAGTGGCCAGAGTTTGAAACCTGTTGTTCTGGATTCCACCCAGAACGTGGAAAACAAAGAAGCTATGAATGGTGAACAGGCAGGGCTGCTTTCACTGCACAGACCGAAGGATGAGCTGAGTGATATGACGAGAGCTGTGGAGATTTCTGGGGAAGGAGACCCCCTGGGGATCCACGTGGTGCCCTTCTTTTCATCCCTGAGTGGCCGGATCCTAGGACTCTTCATCCGAGGCATTGAAGAAAACAGCAGGTGCAAGCAGGAGGGACTATTTCAGGAGAATGAGTGCATTGTAAAAATCAACAATGTGGAACTCCTGGACAAAACTTTTGCTCAGGCCCAAGATGTCTTCCGCCAGGCAATGAAATCTCCCAGTGTGATTCTCCATGTGCTTCTGCCTCAAAACCGTGAACAATATGAAAAATCAGTCATTGGACCACTCAACATTTTTGGCAACAATGATGGGGCTTCGAGAACAAAGGCAGCACCTCCTGCCCGTGGGAAACCAGGTCTGAAGGCAGTACATCTAACAAGAGCGAGCAGCCCTGAAGGAGAAGAGCCAGCCTCCCCGCAGCAAAGCAAGAGTCCCCGGGTTCCAAGACTAGGAAGAAAACCTTCCTCTCCCTCACTCTCTCCTCTCATGGGGTTTGGCAGCAAGAAAAATGCAAAAAAAATTAAGATTGACCTAAAGAAAGGCCCTGAGGGACTTGGTTTCACTGTGGTAACCAGAGATTCTTCTATACATGGTCCTGGTCCCATTTTTGTAAAAAACATCTTACCAAAAGGAGCAGCAGTAAAGGATGGCCGCCTACAATCAGGGGACAGAATTTTGGAGGTAAATGGCAGAGATGTTACAGGAAGAACCCAAGAAGAACTCGTGGCCATGTTAAGGAGCACCAAGCAGGGAGAGACAGTGTCATTGGTCATTGCCCGCCAGGAAGGGAGCTTCCTGCCCCGAGAGCTGAAAGGAGAACCTGATTGTTATGCTCTCTCCCTGGAGTCAAGCGAGCAGCTCACCTTGGAGATCCCCCTGAATGATTCTGGCTCCGCTGGCCTGGGGGTTAGCCTGAAAGGGAATAAGTCTCGAGAAACTGGAACTGACTTGGGGATTTTTATCAAATCCATCATCCATGGAGGTGCTGCTTTCAAGGATGGCCGTCTCCGAATGAATGACCAACTGATTGCTGTTAACGGGGAAACTCTTCTGGGAAAGTCCAACCACGAAGCCATGGAAACACTCAGGCGATCCATGTCCATGGAGGGAAACATCCGGGGCATGATCCAGTTGGTGATTCTGAGGAGACCTGAGAGACCACTGGAGGAGCTTTCAGAATGTGGAGCACTTTCCAGACCAGGCTTTGAGAACTGTCAAGAAGCTCTGAGCACCTCCAGGCGAAATGATAGTAGTATATTATATCCGTTTGGCACCTATAGTCCACAAGATAAAAGGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGCTCTGAGCACCTCCAG
60.11
TCGAAAGCATCTGGGCTCTG
60.11
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGCTCTGAGCACCTCCAG
60.11
TCTCGAAAGCATCTGGGCTC
59.82
176
PCR template sequence:
GGCTTTGAGAACTGTCAAGAAGCTCTGAGCACCTCCAGGCGAAATGATAGTAGTATATTATATCCGTTTGGCACCTATAGTCCACAAGATAAAAGGAAAGCTGATTGCTGTGTTTGACGAACAAGAGCCACTCCAAAAGACTGAGAGCCCCGGTGGAAACCCTGCGGATCGGCAGAGCCCAGATGCTTTCGAGACAGAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
25
Interacting miRNAs (#binding sites)
mmu-miR-29b-2-5p(2), mmu-miR-207(2), mmu-miR-20b-5p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-7b-5p(1), mmu-miR-375-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-106b-5p(1), mmu-miR-709(1), mmu-miR-128-3p(1), mmu-miR-149-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-425-5p(1), mmu-miR-362-5p(1), mmu-miR-673-5p(1), mmu-miR-335-3p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GATAAAAGGAAAGCTGATTGCTGTGT
siRNA sets
ACACAGCAATCAGCTTTCC, CACAGCAATCAGCTTTCCT, AATCAGCTTTCCTTTTATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPARD3B_1702_ORF_1
0.8887
0.193558183
0.999944976
1758
ORF sequence:
ATGATAGTAGTATATTATATCCGTTTGGCACCTATAGTCCACAAGATAAAAGGAAAGCTGATTGCTGTGTTTGACGAACAAGAGCCACTCCAAAAGACTGAGAGCCCCGGTGGAAACCCTGCGGATCGGCAGAGCCCAGATGCTTTCGAGACAGAAGTGGCTGCCCAACTGGCTGCATTTAAACCTGTCGGTGGGGAAATCGTAGTAACCCCTTCTGCTCTGAAGTTAGGCACTCCACTGCTGGTTAGGAGAAGCAGTGACCCAGCACCAGGGCCCCATGCTGATGCCCAGCCAAGCACTGCAAGCCTGAGTGGCCAGAGTTTGAAACCTGTTGTTCTGGATTCCACCCAGAACGTGGAAAACAAAGAAGCTATGAATGGTGAACAGGCAGGGCTGCTTTCACTGCACAGACCGAAGGATGAGCTGAGTGATATGACGAGAGCTGTGGAGATTTCTGGGGAAGGAGACCCCCTGGGGATCCACGTGGTGCCCTTCTTTTCATCCCTGAGTGGCCGGATCCTAGGACTCTTCATCCGAGGCATTGAAGAAAACAGCAGGTGCAAGCAGGAGGGACTATTTCAGGAGAATGAGTGCATTGTAAAAATCAACAATGTGGAACTCCTGGACAAAACTTTTGCTCAGGCCCAAGATGTCTTCCGCCAGGCAATGAAATCTCCCAGTGTGATTCTCCATGTGCTTCTGCCTCAAAACCGTGAACAATATGAAAAATCAGTCATTGGACCACTCAACATTTTTGGCAACAATGATGGGGCTTCGAGAACAAAGGCAGCACCTCCTGCCCGTGGGAAACCAGGTCTGAAGGCAGTACATCTAACAAGAGCGAGCAGCCCTGAAGGAGAAGAGCCAGCCTCCCCGCAGCAAAGCAAGAGTCCCCGGGTTCCAAGACTAGGAAGAAAACCTTCCTCTCCCTCACTCTCTCCTCTCATGGGGTTTGGCAGCAAGAAAAATGCAAAAAAAATTAAGATTGACCTAAAGAAAGGCCCTGAGGGACTTGGTTTCACTGTGGTAACCAGAGATTCTTCTATACATGGTCCTGGTCCCATTTTTGTAAAAAACATCTTACCAAAAGGAGCAGCAGTAAAGGATGGCCGCCTACAATCAGGGGACAGAATTTTGGAGGTAAATGGCAGAGATGTTACAGGAAGAACCCAAGAAGAACTCGTGGCCATGTTAAGGAGCACCAAGCAGGGAGAGACAGTGTCATTGGTCATTGCCCGCCAGGAAGGGAGCTTCCTGCCCCGAGAGCTGAAAGGAGAACCTGATTGTTATGCTCTCTCCCTGGAGTCAAGCGAGCAGCTCACCTTGGAGATCCCCCTGAATGATTCTGGCTCCGCTGGCCTGGGGGTTAGCCTGAAAGGGAATAAGTCTCGAGAAACTGGAACTGACTTGGGGATTTTTATCAAATCCATCATCCATGGAGGTGCTGCTTTCAAGGATGGCCGTCTCCGAATGAATGACCAACTGATTGCTGTTAACGGGGAAACTCTTCTGGGAAAGTCCAACCACGAAGCCATGGAAACACTCAGGCGATCCATGTCCATGGAGGGAAACATCCGGGGCATGATCCAGTTGGTGATTCTGAGGAGACCTGAGAGACCACTGGAGGAGCTTTCAGAATGTGGAGCACTTTCCAGACCAGGCTTTGAGAACTGTCAAGAAGCTCTGAGCACCTCCAGGCGAAATGATAGTAGTATATTATATCCGTTTGGCACCTATAGTCCACAAGATAAAAGGAAA
Peptide sequence:
MIVVYYIRLAPIVHKIKGKLIAVFDEQEPLQKTESPGGNPADRQSPDAFETEVAAQLAAFKPVGGEIVVTPSALKLGTPLLVRRSSDPAPGPHADAQPSTASLSGQSLKPVVLDSTQNVENKEAMNGEQAGLLSLHRPKDELSDMTRAVEISGEGDPLGIHVVPFFSSLSGRILGLFIRGIEENSRCKQEGLFQENECIVKINNVELLDKTFAQAQDVFRQAMKSPSVILHVLLPQNREQYEKSVIGPLNIFGNNDGASRTKAAPPARGKPGLKAVHLTRASSPEGEEPASPQQSKSPRVPRLGRKPSSPSLSPLMGFGSKKNAKKIKIDLKKGPEGLGFTVVTRDSSIHGPGPIFVKNILPKGAAVKDGRLQSGDRILEVNGRDVTGRTQEELVAMLRSTKQGETVSLVIARQEGSFLPRELKGEPDCYALSLESSEQLTLEIPLNDSGSAGLGVSLKGNKSRETGTDLGIFIKSIIHGGAAFKDGRLRMNDQLIAVNGETLLGKSNHEAMETLRRSMSMEGNIRGMIQLVILRRPERPLEELSECGALSRPGFENCQEALSTSRRNDSSILYPFGTYSPQDKRK
IRESfinder result
IRESfinder score
0.525091391
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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