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mmu_circAdgrl3_1406
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgrl3_1406
mm39_Chr. Position ID:
chr5|81708709|81842474|+
Gene name:
Adgrl3
Transcript:
ENSMUST00000132375.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
8,9,10,11,12,13,14,15,16
Exon/intron offsets:
0,85547,87766,99399,102523,127646,128702,132630,133588
Genomic length:
133765
Exon/intron sizes in nt:
81,30,31,04,18,63,91,80,00,00,00,000
Flanking exon/introns:
chr5:81660631-81708709|chr5:81842474-81871908
Splice length:
1406
Other database IDs:
circAtlas: mmu-Lphn3_0041
circAtlas: hsa-ADGRL3_0059, CIRCpedia: HSA_CIRCpedia_137421
Human Ortholog IDs:
Mature spliced Sequence:
GGCCGGTACATCATGGACAAGTCTCCTACATCTCTCCACCAATTCACCTCGACTCTGAACTAGAAAGGCCCCCTGTCAGAGGGATTTCTACCACAGGATCCCTGGGTATGGGAAGCACGACCACCAGCACCACCCTCCGGACCACAACCTGGAACATAGGCAGGAGTACCACCGCATCCTTGCCGGGCAGAAGAAACCGCAGTACCAGCACGCCATCCCCCGCGGTAGAGGTGCTGGATGACGTCACCACACACCTGCCCTCGGCAGCCTCCCAAATCCCAGCTATGGAAGAGAGCTGCGAGGCTGTGGAAGCCCGAGAAATCATGTGGTTTAAGACCAGACAGGGGCAGGTAGCAAAGCAGCCATGCCCAGCAGGAACCATAGGTGTATCAACTTACCTATGTCTTGCTCCTGATGGAATATGGGACCCCCAAGGACCAGATCTCAGCAACTGCTCTTCTCCTTGGGTCAATCACATAACACAGAAGCTGAAATCCGGAGAAACAGCTGCCAATATTGCCAGAGAGCTAGCAGAACAGACAAGAAATCACTTGAACGCTGGGGACATCACCTACTCTGTCCGTGCCATGGACCAGCTGGTTGGCCTCTTGGATGTCCAGCTCAGGAATTTGACACCAGGGGGAAAAGACAGCGCAGCCCGCAGCTTGAACAAGCTTCAGAAAAGAGAGCGCTCTTGCAGAGCCTATGTCCAGGCGATGGTGGAGACAGTTAACAACCTCCTTCAGCCACAAGCTTTGAATGCCTGGAGAGACCTGACGACAAGTGATCAACTGCGTGCGGCCACCATGTTGCTTGACACTGTGGAGGAGAGCGCTTTCGTGTTAGCTGATAACCTTTTGAAGACCGACATTGTCAGGGAGAATACAGACAATATTCAGTTAGAAGTTGCAAGACTGAGCACGGAAGGAAACCTAGAAGATCTAAAATTCCCAGAGAACATGGGCCACGGAAGTACCATCCAGCTCTCAGCAAACACATTAAAGCAAAATGGCCGGAATGGAGAGATTAGAGTGGCTTTTGTCCTGTATAATAACCTGGGTCCTTATTTGTCTACGGAGAATGCCAGTATGAAGTTGGGCACAGAAGCTATGTCCACAAATCACTCGGTTATCGTCAATTCCCCTGTTATTACAGCAGCAATAAATAAGGAATTCAGTAATAAAGTGTATTTGGCTGATCCTGTGGTATTTACTGTTAAACACATCAAGCAGTCAGAAGAAAATTTCAACCCTAACTGTTCATTTTGGAGCTATTCCAAGCGCACAATGACAGGTTATTGGTCAACACAAGGCTGTCGACTCCTGACAACCAACAAGACACATACTACATGCTCCTGTAACCACCTCACCAACTTTGCAGTATTGATGGCACATGTGGAAGTTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGGCTGTCGACTCCTGAC
60.39
TCTGACAGGGGGCCTTTCTA
59.88
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGGCTGTCGACTCCTGAC
60.39
TGACAGGGGGCCTTTCTAGT
60.18
177
PCR template sequence:
ACAAGGCTGTCGACTCCTGACAACCAACAAGACACATACTACATGCTCCTGTAACCACCTCACCAACTTTGCAGTATTGATGGCACATGTGGAAGTTAAGGGCCGGTACATCATGGACAAGTCTCCTACATCTCTCCACCAATTCACCTCGACTCTGAACTAGAAAGGCCCCCTGTCAGAGGGATTTCTACCACAGGATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-137-3p(1), mmu-miR-200b-3p(1), mmu-miR-181a-5p(1), mmu-miR-200c-3p(1), mmu-miR-138-5p(1), mmu-miR-370-3p(1), mmu-miR-183-5p(1), mmu-miR-1198-5p(1), mmu-miR-300-3p(1), mmu-miR-5101(1), mmu-miR-670-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TGTGGAAGTTAAGGGCCGGTACATCA
siRNA sets
TACCGGCCCTTAACTTCCA,ATGTACCGGCCCTTAACTT,GATGTACCGGCCCTTAACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGRL3_1406_ORF_1
0.9645
0.183835344
0.999146285
1362
ORF sequence:
ATGGGAAGCACGACCACCAGCACCACCCTCCGGACCACAACCTGGAACATAGGCAGGAGTACCACCGCATCCTTGCCGGGCAGAAGAAACCGCAGTACCAGCACGCCATCCCCCGCGGTAGAGGTGCTGGATGACGTCACCACACACCTGCCCTCGGCAGCCTCCCAAATCCCAGCTATGGAAGAGAGCTGCGAGGCTGTGGAAGCCCGAGAAATCATGTGGTTTAAGACCAGACAGGGGCAGGTAGCAAAGCAGCCATGCCCAGCAGGAACCATAGGTGTATCAACTTACCTATGTCTTGCTCCTGATGGAATATGGGACCCCCAAGGACCAGATCTCAGCAACTGCTCTTCTCCTTGGGTCAATCACATAACACAGAAGCTGAAATCCGGAGAAACAGCTGCCAATATTGCCAGAGAGCTAGCAGAACAGACAAGAAATCACTTGAACGCTGGGGACATCACCTACTCTGTCCGTGCCATGGACCAGCTGGTTGGCCTCTTGGATGTCCAGCTCAGGAATTTGACACCAGGGGGAAAAGACAGCGCAGCCCGCAGCTTGAACAAGCTTCAGAAAAGAGAGCGCTCTTGCAGAGCCTATGTCCAGGCGATGGTGGAGACAGTTAACAACCTCCTTCAGCCACAAGCTTTGAATGCCTGGAGAGACCTGACGACAAGTGATCAACTGCGTGCGGCCACCATGTTGCTTGACACTGTGGAGGAGAGCGCTTTCGTGTTAGCTGATAACCTTTTGAAGACCGACATTGTCAGGGAGAATACAGACAATATTCAGTTAGAAGTTGCAAGACTGAGCACGGAAGGAAACCTAGAAGATCTAAAATTCCCAGAGAACATGGGCCACGGAAGTACCATCCAGCTCTCAGCAAACACATTAAAGCAAAATGGCCGGAATGGAGAGATTAGAGTGGCTTTTGTCCTGTATAATAACCTGGGTCCTTATTTGTCTACGGAGAATGCCAGTATGAAGTTGGGCACAGAAGCTATGTCCACAAATCACTCGGTTATCGTCAATTCCCCTGTTATTACAGCAGCAATAAATAAGGAATTCAGTAATAAAGTGTATTTGGCTGATCCTGTGGTATTTACTGTTAAACACATCAAGCAGTCAGAAGAAAATTTCAACCCTAACTGTTCATTTTGGAGCTATTCCAAGCGCACAATGACAGGTTATTGGTCAACACAAGGCTGTCGACTCCTGACAACCAACAAGACACATACTACATGCTCCTGTAACCACCTCACCAACTTTGCAGTATTGATGGCACATGTGGAAGTTAAGGGCCGGTACATCATGGACAAGTCTCCTACATCTCTCCACCAATTCACCTCGACTCTGAACTAG
Peptide sequence:
MGSTTTSTTLRTTTWNIGRSTTASLPGRRNRSTSTPSPAVEVLDDVTTHLPSAASQIPAMEESCEAVEAREIMWFKTRQGQVAKQPCPAGTIGVSTYLCLAPDGIWDPQGPDLSNCSSPWVNHITQKLKSGETAANIARELAEQTRNHLNAGDITYSVRAMDQLVGLLDVQLRNLTPGGKDSAARSLNKLQKRERSCRAYVQAMVETVNNLLQPQALNAWRDLTTSDQLRAATMLLDTVEESAFVLADNLLKTDIVRENTDNIQLEVARLSTEGNLEDLKFPENMGHGSTIQLSANTLKQNGRNGEIRVAFVLYNNLGPYLSTENASMKLGTEAMSTNHSVIVNSPVITAAINKEFSNKVYLADPVVFTVKHIKQSEENFNPNCSFWSYSKRTMTGYWSTQGCRLLTTNKTHTTCSCNHLTNFAVLMAHVEVKGRYIMDKSPTSLHQFTSTLN
IRESfinder result
IRESfinder score
0.420783516
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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