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mmu_circChuk_1589
Basic information of circular RNA
PanCircBase ID:
mmu_circChuk_1589
mm39_Chr. Position ID:
chr19|44066731|44087112|-
Gene name:
Chuk
Transcript:
ENSMUST00000026217.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
14
Exon/intron indexes:
18,17,16,15,14,13,12,11,10,9,8,7,6,5
Exon/intron offsets:
0,596,3653,4293,6124,8615,9623,10382,12640,17931,18616,18910,19149,20292
Genomic length:
20381
Exon/intron sizes in nt:
148,97,50,110,62,152,124,103,195,136,108,125,90,89
Flanking exon/introns:
chr19:44065818-44066731|chr19:44087112-44088588
Splice length:
1589
Other database IDs:
circAtlas: mmu-Chuk_0020
Human Ortholog IDs:
Mature spliced Sequence:
GATCTGGGATCCGATATCTGCATGAAAACAAAATTATACATCGAGATCTAAAACCTGAAAATATAGTTCTTCAAGATGTTGGTGGGAAGACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTGGCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTGGCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAGTTTAATAGTAGAGCCAATGGAAAGCTGGCTCCAATTGATGCTGAATTGGGACCCACAGCAGAGAGGGGGACCTATTGATCTTACTTTGAAGCAGCCAAGATGTTTTGCATTAATGGATCACATTCTCAATTTAAAGATAGTGCACATCCTAAATATGACTTCTGCAAAAATCATTTCTTTTCTGTTACCATGTGATGAAAGTCTTCATTCACTACAGTCTCGAATTGAGCGTGAAACAGGAATAAATACAGGTTCTCAGGAGCTTCTGTCAGAGACAGGGATTTCTCTGGATCCTCGGAAACCAGCCTCTCAGTGTGTTCTAGATGGAGTTAGAGGCTGTGATAGCTACATGGTTTATTTGTTTGATAAAAGTAAGACTGTATATGAAGGACCATTTGCATCCAGAAGTTTATCTGATTGTGTAAATTATATTGTACAAGACAGCAAAATACAACTGCCAATTATACAGCTGCGGAAAGTATGGGCTGAAGCAGTGCACTACGTATCTGGGCTAAAGGAAGACTACAGCAGGCTCTTCCAGGGACAAAGAGCAGCAATGTTAAGTCTTCTTAGATATAATGCTAACTTGACAAAAATGAAGAATACTTTGATCTCAGCATCACAGCAACTCAAAGCTAAATTGGAGTTTTTTCGAAAAAGCATTCAGCTTGACTTGGAGAGATATAGTGAGCAGATGACTTATGGGATATCTTCAGAAAAAATGTTAAAAGCATGGAAAGAAATGGAAGAAAAGGCCATTCACTATTCTGAGGTTGGTGTCATTGGTTATCTTGAGGATCAAATTATGTCTTTGCACACTGAAATCATGGAGCTGCAGAAGAGCCCCTATGGACGACGCCAGGGAGACTTGATGGAGTCTCTGGAGCAGCGTGCCATTGATCTCTATAAGCAGCTAAAGCACAGACCTCCTGATCACTTGTACAGCGACAGCACAGAGATGGTGAAGATCATCGTGCACACCGTGCAGAGTCAGGACCGTGTTCTCAAGGAGCTGTTTGGTCACCTGAGCAAGTTGTTGGGCTGCAAGCAGAAGATTATTGATCTACTCCCCAAGGTGGAAGTGGCCCTCAGTAACATCAAAGAAGCTGACAATACTGTCATGTTTATGCAGGGAAAGAGGCAGAAAGAAATTTGGCACCTCCTTAAAATTGCCTGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAGGGAAAGAGGCAGAAA
59.52
TGTCTTCCCACCAACATCTTGA
59.56
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGCAGGGAAAGAGGCAGAA
59.3
TGTCTTCCCACCAACATCTTGA
59.56
143
PCR template sequence:
GGAAGTGGCCCTCAGTAACATCAAAGAAGCTGACAATACTGTCATGTTTATGCAGGGAAAGAGGCAGAAAGAAATTTGGCACCTCCTTAAAATTGCCTGTGATCTGGGATCCGATATCTGCATGAAAACAAAATTATACATCGAGATCTAAAACCTGAAAATATAGTTCTTCAAGATGTTGGTGGGAAGACAATACATAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-7b-5p(1), mmu-miR-181a-5p(1), mmu-miR-135a-5p(1), mmu-miR-19b-3p(1), mmu-miR-200c-3p(1), mmu-miR-326-3p(1), mmu-miR-339-5p(1), mmu-miR-136-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-194-5p(1), mmu-miR-425-5p(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TAAAATTGCCTGTGATCTGGGATCCG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCHUK_1589_ORF_1
0.8643
0.069371224
0.998722999
1398
ORF sequence:
ATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTGGCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAGTTTAATAGTAGAGCCAATGGAAAGCTGGCTCCAATTGATGCTGAATTGGGACCCACAGCAGAGAGGGGGACCTATTGATCTTACTTTGAAGCAGCCAAGATGTTTTGCATTAATGGATCACATTCTCAATTTAAAGATAGTGCACATCCTAAATATGACTTCTGCAAAAATCATTTCTTTTCTGTTACCATGTGATGAAAGTCTTCATTCACTACAGTCTCGAATTGAGCGTGAAACAGGAATAAATACAGGTTCTCAGGAGCTTCTGTCAGAGACAGGGATTTCTCTGGATCCTCGGAAACCAGCCTCTCAGTGTGTTCTAGATGGAGTTAGAGGCTGTGATAGCTACATGGTTTATTTGTTTGATAAAAGTAAGACTGTATATGAAGGACCATTTGCATCCAGAAGTTTATCTGATTGTGTAAATTATATTGTACAAGACAGCAAAATACAACTGCCAATTATACAGCTGCGGAAAGTATGGGCTGAAGCAGTGCACTACGTATCTGGGCTAAAGGAAGACTACAGCAGGCTCTTCCAGGGACAAAGAGCAGCAATGTTAAGTCTTCTTAGATATAATGCTAACTTGACAAAAATGAAGAATACTTTGATCTCAGCATCACAGCAACTCAAAGCTAAATTGGAGTTTTTTCGAAAAAGCATTCAGCTTGACTTGGAGAGATATAGTGAGCAGATGACTTATGGGATATCTTCAGAAAAAATGTTAAAAGCATGGAAAGAAATGGAAGAAAAGGCCATTCACTATTCTGAGGTTGGTGTCATTGGTTATCTTGAGGATCAAATTATGTCTTTGCACACTGAAATCATGGAGCTGCAGAAGAGCCCCTATGGACGACGCCAGGGAGACTTGATGGAGTCTCTGGAGCAGCGTGCCATTGATCTCTATAAGCAGCTAAAGCACAGACCTCCTGATCACTTGTACAGCGACAGCACAGAGATGGTGAAGATCATCGTGCACACCGTGCAGAGTCAGGACCGTGTTCTCAAGGAGCTGTTTGGTCACCTGAGCAAGTTGTTGGGCTGCAAGCAGAAGATTATTGATCTACTCCCCAAGGTGGAAGTGGCCCTCAGTAACATCAAAGAAGCTGACAATACTGTCATGTTTATGCAGGGAAAGAGGCAGAAAGAAATTTGGCACCTCCTTAAAATTGCCTGTGATCTGGGATCCGATATCTGCATGAAAACAAAATTATACATCGAGATCTAA
Peptide sequence:
MVFECIAGYRPFLHHLQPFTWHEKIKKKDPKCIFACEEMTGEVRFSSHLPQPNSLCSLIVEPMESWLQLMLNWDPQQRGGPIDLTLKQPRCFALMDHILNLKIVHILNMTSAKIISFLLPCDESLHSLQSRIERETGINTGSQELLSETGISLDPRKPASQCVLDGVRGCDSYMVYLFDKSKTVYEGPFASRSLSDCVNYIVQDSKIQLPIIQLRKVWAEAVHYVSGLKEDYSRLFQGQRAAMLSLLRYNANLTKMKNTLISASQQLKAKLEFFRKSIQLDLERYSEQMTYGISSEKMLKAWKEMEEKAIHYSEVGVIGYLEDQIMSLHTEIMELQKSPYGRRQGDLMESLEQRAIDLYKQLKHRPPDHLYSDSTEMVKIIVHTVQSQDRVLKELFGHLSKLLGCKQKIIDLLPKVEVALSNIKEADNTVMFMQGKRQKEIWHLLKIACDLGSDICMKTKLYIEI
IRESfinder result
IRESfinder score
0.689065476
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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