top of page
mmu_circThada_2084
Basic information of circular RNA
PanCircBase ID:
mmu_circThada_2084
mm39_Chr. Position ID:
chr17|84747422|84766328|-
Gene name:
Thada
Transcript:
ENSMUST00000047524.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
14,13,12,11,10,9,8,7,6,5,4,3
Exon/intron offsets:
0,944,1666,3823,6510,7950,11714,14614,14877,15024,17845,18811
Genomic length:
18906
Exon/intron sizes in nt:
123,156,152,692,221,95,188,49,33,149,131,95
Flanking exon/introns:
chr17:84744146-84747422|chr17:84766328-84771784
Splice length:
2084
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTTTTGCTGATATGGAAGGGAAAAATCTAGCCTCTTTGCTGTTACATTGTGTACAGCTCACAGATGGAGTGTCACAAATCCACTCTATTAAACAGATTGTGCCTCTCTTGGAGAAGGTCGATAAAAACGGTGTGTGCGATCCTGCTATTCAGAGTTGTTTGGATATTCTAGCAGGCATTTATTTTTCCTTGACTCTGAAGAACCCCTTGAAGAAAGTTTTGGCCAGCTCACTCAATGGCCTACCTGAGGTTTTTCTAACTCAGGCAACACACAGTTTTACTTTTCATCTTCAAGAAGAATTAGATACTGCTGACTTATATTCTTATAGAAAAGTAATGGATAACATATCTTCCTGCATGGAGAACTTTAACCTGGGTAGAGCAAGTGTGGTTAATCTGCTTAAAGATGTGCTTCATTTTCTGCAGAAGAGTTTAATTGAAATCCTGGAAGAAAACAGGAAGTTTGCTGGAAATCGTATTGTTCAAACACAGTTAATGAGTGACTTGCTGGTAGGTGTTAGAGTTGCCATGACATTGGTACAGAAAGTACAGGGGCCCCAGGGCAGCCTCTGGAATGACTCCAGCTCACCCATCTGGCAGAGTATGTGTGGCTTGCTGAGCATCTTCACCAAGTTCTTAAATGACGATGACCTACTGCAGACTGTTGAGAGTACATCTGGATTAGCTGTTATTCTTTTCATTAAGACCATGTTCCGGCCATCTGAAAAGCTTCCTGGATTGATCAGCAGCTTGCTTCTCCGGTCTGCTGAGTGCACTAGCATCCCTGAGTGGCTCATGAATAGCTGTAGGAGCCTTTGCTGTACTGATGTGCCAGCCTCAACTCTCTTATTCCTGTGTCAGGGAACACTTGCTATGCTGGACTGGCAGGATGGGAGCATGGGCCCCAGCGGGGAGGCTTTGCTCTTGGATATAGTGCATGTTTTGTTCACCTTGAGTTCACAGATTAAGGAGTCCACATTAGATATGTTCCTGTCTAGAATCCTGGCATCTTGGACCAGTTCAGCCATACAGATCCTTGAATCAGGCTCCTCAGGCTTAAAGGGTCATCTGAACGGGGACTCATGCGTACCTAGGAGACTTCTGGAGTATGTCTACACACACTGGGAGCACCCGTTAGACGCTCTGAGACATCAAACCAAAGTCATGTTCAGGAATCTCTTGCAAATGCACCGGCTCACTATGGAAGGGGCAGATTTGGCCACTGACCCCTTCTGTCTGGAGTTGACTAAGAGTCTTCTGCAGCTGGAATGGCACATTAAAGGGAAGTACGCTTGCCTTGGCTGTTTGGTGGAGACTCTTGGAATTGAACATATTTTGGCAATAGATAAAACCATTCCATCTCAAATTCTAGAGGTGATGGGAGACCAGTCATTGGTACCTTATGCAAGTGACCTCTTGGAAACCATGTTTAAAAATCATAAGAGCCATTTGAAGTCCCAAACTGTCACCAATACCTGGATGGACAAGTGGCATGAGACTTGGGTTTTCCCTGTCCTTTCTGTACTGTGTGGAGGAAACTTGGATCAGAGATCTTATGTGATTGATTATTACCTGCCACGGATACTGAATTACAGCCCCGAGAGCCTGCACTACATGGTGCACATTCTTCAGGCATCTACTGATACTGGAACTGGGTCTTGTAATCACAGAGGAGCTCTGGGAGCTTTGATGGCGTGTCTCCGAACAGCTAGAGCTCATGGACATCTTCAGTCTGCAACTCAGGCCTGGGAGAACCTTGTGTGCAGTGCAAGGGTAAAGCAAGGCTTAATTCACCAACACTGCCAAGTGCGGATAGATACACTAGGCTTGCTTTGTGAAAGTAATCGGAGTACAGAAGTGGTCTCTACAGAAGAAATGCAGTGGGTTCAGTTTTTTATCACTTACAACCTCAACAGCCAGTCTCCAGGGGTGCGCCAGCAGATTTGCTCACTCCTTAAAAAGTTGTTTTGCAGGATACAAGAAAGTTCACAGGTACTTTATAAATTGGAACAGAGAAAATCTACACCTGACTCAGAGAACGGGTCCATCAGAGAGCAGCCTTCTGTCACTTTACAGCAGTATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TACACCTGACTCAGAGAACGG
58.84
TGTGACACTCCATCTGTGAGC
60
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTACACCTGACTCAGAGAACGG
59.84
TGTGACACTCCATCTGTGAGC
60
141
PCR template sequence:
TTCACAGGTACTTTATAAATTGGAACAGAGAAAATCTACACCTGACTCAGAGAACGGGTCCATCAGAGAGCAGCCTTCTGTCACTTTACAGCAGTATAAGCTTTTGCTGATATGGAAGGGAAAAATCTAGCCTCTTTGCTGTTACATTGTGTACAGCTCACAGATGGAGTGTCACAAATCCACTCTATTAAACAGATTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
18
Interacting miRNAs (#binding sites)
mmu-miR-194-5p(2), mmu-miR-140-5p(1), mmu-miR-199a-5p(1), mmu-miR-34c-5p(1), mmu-miR-101a-3p(1), mmu-miR-204-5p(1), mmu-miR-335-5p(1), mmu-miR-132-3p(1), mmu-miR-214-3p(1), mmu-miR-351-5p(1), mmu-miR-212-3p(1), mmu-miR-467b-5p(1), mmu-miR-34b-5p(1), mmu-miR-224-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-190b-5p(1), mmu-miR-350-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAGCAGTATAAGCTTTTGCTGATAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTHADA_2084_ORF_1
0.8537
0.026591741
0.999990186
2103
ORF sequence:
ATGGAAGGGAAAAATCTAGCCTCTTTGCTGTTACATTGTGTACAGCTCACAGATGGAGTGTCACAAATCCACTCTATTAAACAGATTGTGCCTCTCTTGGAGAAGGTCGATAAAAACGGTGTGTGCGATCCTGCTATTCAGAGTTGTTTGGATATTCTAGCAGGCATTTATTTTTCCTTGACTCTGAAGAACCCCTTGAAGAAAGTTTTGGCCAGCTCACTCAATGGCCTACCTGAGGTTTTTCTAACTCAGGCAACACACAGTTTTACTTTTCATCTTCAAGAAGAATTAGATACTGCTGACTTATATTCTTATAGAAAAGTAATGGATAACATATCTTCCTGCATGGAGAACTTTAACCTGGGTAGAGCAAGTGTGGTTAATCTGCTTAAAGATGTGCTTCATTTTCTGCAGAAGAGTTTAATTGAAATCCTGGAAGAAAACAGGAAGTTTGCTGGAAATCGTATTGTTCAAACACAGTTAATGAGTGACTTGCTGGTAGGTGTTAGAGTTGCCATGACATTGGTACAGAAAGTACAGGGGCCCCAGGGCAGCCTCTGGAATGACTCCAGCTCACCCATCTGGCAGAGTATGTGTGGCTTGCTGAGCATCTTCACCAAGTTCTTAAATGACGATGACCTACTGCAGACTGTTGAGAGTACATCTGGATTAGCTGTTATTCTTTTCATTAAGACCATGTTCCGGCCATCTGAAAAGCTTCCTGGATTGATCAGCAGCTTGCTTCTCCGGTCTGCTGAGTGCACTAGCATCCCTGAGTGGCTCATGAATAGCTGTAGGAGCCTTTGCTGTACTGATGTGCCAGCCTCAACTCTCTTATTCCTGTGTCAGGGAACACTTGCTATGCTGGACTGGCAGGATGGGAGCATGGGCCCCAGCGGGGAGGCTTTGCTCTTGGATATAGTGCATGTTTTGTTCACCTTGAGTTCACAGATTAAGGAGTCCACATTAGATATGTTCCTGTCTAGAATCCTGGCATCTTGGACCAGTTCAGCCATACAGATCCTTGAATCAGGCTCCTCAGGCTTAAAGGGTCATCTGAACGGGGACTCATGCGTACCTAGGAGACTTCTGGAGTATGTCTACACACACTGGGAGCACCCGTTAGACGCTCTGAGACATCAAACCAAAGTCATGTTCAGGAATCTCTTGCAAATGCACCGGCTCACTATGGAAGGGGCAGATTTGGCCACTGACCCCTTCTGTCTGGAGTTGACTAAGAGTCTTCTGCAGCTGGAATGGCACATTAAAGGGAAGTACGCTTGCCTTGGCTGTTTGGTGGAGACTCTTGGAATTGAACATATTTTGGCAATAGATAAAACCATTCCATCTCAAATTCTAGAGGTGATGGGAGACCAGTCATTGGTACCTTATGCAAGTGACCTCTTGGAAACCATGTTTAAAAATCATAAGAGCCATTTGAAGTCCCAAACTGTCACCAATACCTGGATGGACAAGTGGCATGAGACTTGGGTTTTCCCTGTCCTTTCTGTACTGTGTGGAGGAAACTTGGATCAGAGATCTTATGTGATTGATTATTACCTGCCACGGATACTGAATTACAGCCCCGAGAGCCTGCACTACATGGTGCACATTCTTCAGGCATCTACTGATACTGGAACTGGGTCTTGTAATCACAGAGGAGCTCTGGGAGCTTTGATGGCGTGTCTCCGAACAGCTAGAGCTCATGGACATCTTCAGTCTGCAACTCAGGCCTGGGAGAACCTTGTGTGCAGTGCAAGGGTAAAGCAAGGCTTAATTCACCAACACTGCCAAGTGCGGATAGATACACTAGGCTTGCTTTGTGAAAGTAATCGGAGTACAGAAGTGGTCTCTACAGAAGAAATGCAGTGGGTTCAGTTTTTTATCACTTACAACCTCAACAGCCAGTCTCCAGGGGTGCGCCAGCAGATTTGCTCACTCCTTAAAAAGTTGTTTTGCAGGATACAAGAAAGTTCACAGGTACTTTATAAATTGGAACAGAGAAAATCTACACCTGACTCAGAGAACGGGTCCATCAGAGAGCAGCCTTCTGTCACTTTACAGCAGTATAAGCTTTTGCTGATATGGAAGGGAAAAATCTAG
Peptide sequence:
MEGKNLASLLLHCVQLTDGVSQIHSIKQIVPLLEKVDKNGVCDPAIQSCLDILAGIYFSLTLKNPLKKVLASSLNGLPEVFLTQATHSFTFHLQEELDTADLYSYRKVMDNISSCMENFNLGRASVVNLLKDVLHFLQKSLIEILEENRKFAGNRIVQTQLMSDLLVGVRVAMTLVQKVQGPQGSLWNDSSSPIWQSMCGLLSIFTKFLNDDDLLQTVESTSGLAVILFIKTMFRPSEKLPGLISSLLLRSAECTSIPEWLMNSCRSLCCTDVPASTLLFLCQGTLAMLDWQDGSMGPSGEALLLDIVHVLFTLSSQIKESTLDMFLSRILASWTSSAIQILESGSSGLKGHLNGDSCVPRRLLEYVYTHWEHPLDALRHQTKVMFRNLLQMHRLTMEGADLATDPFCLELTKSLLQLEWHIKGKYACLGCLVETLGIEHILAIDKTIPSQILEVMGDQSLVPYASDLLETMFKNHKSHLKSQTVTNTWMDKWHETWVFPVLSVLCGGNLDQRSYVIDYYLPRILNYSPESLHYMVHILQASTDTGTGSCNHRGALGALMACLRTARAHGHLQSATQAWENLVCSARVKQGLIHQHCQVRIDTLGLLCESNRSTEVVSTEEMQWVQFFITYNLNSQSPGVRQQICSLLKKLFCRIQESSQVLYKLEQRKSTPDSENGSIREQPSVTLQQYKLLLIWKGKI
IRESfinder result
IRESfinder score
0.737637656
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page