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mmu_circAdgrl3_1848
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgrl3_1848
mm39_Chr. Position ID:
chr5|81457717|81811271|+
Gene name:
Adgrl3
Transcript:
ENSMUST00000132375.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
4,5,6,7,8,9,10,11,12
Exon/intron offsets:
0,155324,199853,202113,250992,336539,338758,350391,353515
Genomic length:
353554
Exon/intron sizes in nt:
209,110,15,801,81,303,104,186,39
Flanking exon/introns:
chr5:81345478-81457717|chr5:81811271-81836355
Splice length:
1848
Other database IDs:
CIRCpedia: HSA_CIRCpedia_137412
Human Ortholog IDs:
Mature spliced Sequence:
GTGTCTCAAGTGGGATATCAGTGTTTATTTTTGAGGAATTTTTCTTTCTGTTTGTGTTTGGTTTTTAATCATTGATATTGGAGTACTGAAGAGGAGCCAGAAGTCTATTGATTTGGTTTCACTTCAGACCAGCCATTCCTCCGAGAACACAGTCATGTGGCCACCACAGCTACTCATCCTCACGATGCTTTTAGCACCTGTAGTTCATGATGCAATAACAGAACCCAGTGTGCAGTGGTGGCAGGTCCTGATGTATTTCCAGACCCATGTCCGGGAACATATAAATACCTTGAAGTGCAGTATGAATGTGTCCCTTATAAAGTGGAACAAAAAGTTTTTCTTTGTCCTGGACTGCTAAAAGGAGTGTACCAGAGTGAACACTTGTTTGAATCTGACCACCAATCTGGGGCATGGTGCAAGGACCCTCTACAGGCTTCTGACAAGATTTACTATATGCCCTGGACTCCCTACAGAACTGACACCCTGACAGAGTATTCGTCCAAAGATGACTTCATTGCTGGAAGGCCAACAACTACCTACAAGCTCCCTCACAGAGTGGATGGCACTGGATTTGTAGTATACGATGGTGCCCTCTTCTTCAACAAGGAGCGGACAAGGAACATTGTAAAGTTTGATTTGAGGACTAGGATAAAGAGTGGAGAGGCAATCATAGCAAATGCTAATTACCATGACACCTCCCCATACCGATGGGGTGGCAAGTCCGACATAGACTTGGCAGTGGATGAAAATGGATTATGGGTAATCTATGCAACAGAACAGAACAATGGCAAGATTGTCATTAGCCAGTTGAACCCTTACACCCTACGGATTGAGGGGACATGGGACACTGCCTATGATAAAAGGTCAGCTTCCAATGCATTCATGATTTGTGGGATTCTGTATGTGGTCAAATCTGTATATGAGGATGATGACAACGAGGCCACCGGTAATAAGATTGACTACATTTACAACACTGACCAAAGCAAGGATAGCTTGGTGGATGTACCCTTTCCCAACTCTTACCAGTACATAGCAGCTGTGGATTACAATCCCAGGGACAATCTGCTCTATGTGTGGAATAACTACCACGTTGTGAAATACTCTTTGGACTTCGGGCCTCTGGATAGTAGATCAGGGCCGGTACATCATGGACAAGTCTCCTACATCTCTCCACCAATTCACCTCGACTCTGAACTAGAAAGGCCCCCTGTCAGAGGGATTTCTACCACAGGATCCCTGGGTATGGGAAGCACGACCACCAGCACCACCCTCCGGACCACAACCTGGAACATAGGCAGGAGTACCACCGCATCCTTGCCGGGCAGAAGAAACCGCAGTACCAGCACGCCATCCCCCGCGGTAGAGGTGCTGGATGACGTCACCACACACCTGCCCTCGGCAGCCTCCCAAATCCCAGCTATGGAAGAGAGCTGCGAGGCTGTGGAAGCCCGAGAAATCATGTGGTTTAAGACCAGACAGGGGCAGGTAGCAAAGCAGCCATGCCCAGCAGGAACCATAGGTGTATCAACTTACCTATGTCTTGCTCCTGATGGAATATGGGACCCCCAAGGACCAGATCTCAGCAACTGCTCTTCTCCTTGGGTCAATCACATAACACAGAAGCTGAAATCCGGAGAAACAGCTGCCAATATTGCCAGAGAGCTAGCAGAACAGACAAGAAATCACTTGAACGCTGGGGACATCACCTACTCTGTCCGTGCCATGGACCAGCTGGTTGGCCTCTTGGATGTCCAGCTCAGGAATTTGACACCAGGGGGAAAAGACAGCGCAGCCCGCAGCTTGAACAAGCTTCAGAAAAGAGAGCGCTCTTGCAGAGCCTATGTCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACACCAGGGGGAAAAGACAG
59.52
TGGCTCCTCTTCAGTACTCCA
59.92
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACCAGGGGGAAAAGACAGC
60.9
TGGCTCCTCTTCAGTACTCCA
59.92
179
PCR template sequence:
TGTCCAGCTCAGGAATTTGACACCAGGGGGAAAAGACAGCGCAGCCCGCAGCTTGAACAAGCTTCAGAAAAGAGAGCGCTCTTGCAGAGCCTATGTCCAGGTGTCTCAAGTGGGATATCAGTGTTTATTTTTGAGGAATTTTTCTTTCTGTTTGTGTTTGGTTTTTAATCATTGATATTGGAGTACTGAAGAGGAGCCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-34a-5p(1), mmu-miR-33-5p(1), mmu-miR-138-5p(1), mmu-miR-181b-5p(1), mmu-miR-149-5p(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-335-3p(1), mmu-miR-3470b(1), mmu-miR-1904(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCCTATGTCCAGGTGTCTCAAGTGG
siRNA sets
TTGAGACACCTGGACATAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGRL3_1848_ORF_1
0.816
0.174682354
0.999452815
1470
ORF sequence:
ATGCCCTGGACTCCCTACAGAACTGACACCCTGACAGAGTATTCGTCCAAAGATGACTTCATTGCTGGAAGGCCAACAACTACCTACAAGCTCCCTCACAGAGTGGATGGCACTGGATTTGTAGTATACGATGGTGCCCTCTTCTTCAACAAGGAGCGGACAAGGAACATTGTAAAGTTTGATTTGAGGACTAGGATAAAGAGTGGAGAGGCAATCATAGCAAATGCTAATTACCATGACACCTCCCCATACCGATGGGGTGGCAAGTCCGACATAGACTTGGCAGTGGATGAAAATGGATTATGGGTAATCTATGCAACAGAACAGAACAATGGCAAGATTGTCATTAGCCAGTTGAACCCTTACACCCTACGGATTGAGGGGACATGGGACACTGCCTATGATAAAAGGTCAGCTTCCAATGCATTCATGATTTGTGGGATTCTGTATGTGGTCAAATCTGTATATGAGGATGATGACAACGAGGCCACCGGTAATAAGATTGACTACATTTACAACACTGACCAAAGCAAGGATAGCTTGGTGGATGTACCCTTTCCCAACTCTTACCAGTACATAGCAGCTGTGGATTACAATCCCAGGGACAATCTGCTCTATGTGTGGAATAACTACCACGTTGTGAAATACTCTTTGGACTTCGGGCCTCTGGATAGTAGATCAGGGCCGGTACATCATGGACAAGTCTCCTACATCTCTCCACCAATTCACCTCGACTCTGAACTAGAAAGGCCCCCTGTCAGAGGGATTTCTACCACAGGATCCCTGGGTATGGGAAGCACGACCACCAGCACCACCCTCCGGACCACAACCTGGAACATAGGCAGGAGTACCACCGCATCCTTGCCGGGCAGAAGAAACCGCAGTACCAGCACGCCATCCCCCGCGGTAGAGGTGCTGGATGACGTCACCACACACCTGCCCTCGGCAGCCTCCCAAATCCCAGCTATGGAAGAGAGCTGCGAGGCTGTGGAAGCCCGAGAAATCATGTGGTTTAAGACCAGACAGGGGCAGGTAGCAAAGCAGCCATGCCCAGCAGGAACCATAGGTGTATCAACTTACCTATGTCTTGCTCCTGATGGAATATGGGACCCCCAAGGACCAGATCTCAGCAACTGCTCTTCTCCTTGGGTCAATCACATAACACAGAAGCTGAAATCCGGAGAAACAGCTGCCAATATTGCCAGAGAGCTAGCAGAACAGACAAGAAATCACTTGAACGCTGGGGACATCACCTACTCTGTCCGTGCCATGGACCAGCTGGTTGGCCTCTTGGATGTCCAGCTCAGGAATTTGACACCAGGGGGAAAAGACAGCGCAGCCCGCAGCTTGAACAAGCTTCAGAAAAGAGAGCGCTCTTGCAGAGCCTATGTCCAGGTGTCTCAAGTGGGATATCAGTGTTTATTTTTGAGGAATTTTTCTTTCTGTTTGTGTTTGGTTTTTAATCATTGA
Peptide sequence:
MPWTPYRTDTLTEYSSKDDFIAGRPTTTYKLPHRVDGTGFVVYDGALFFNKERTRNIVKFDLRTRIKSGEAIIANANYHDTSPYRWGGKSDIDLAVDENGLWVIYATEQNNGKIVISQLNPYTLRIEGTWDTAYDKRSASNAFMICGILYVVKSVYEDDDNEATGNKIDYIYNTDQSKDSLVDVPFPNSYQYIAAVDYNPRDNLLYVWNNYHVVKYSLDFGPLDSRSGPVHHGQVSYISPPIHLDSELERPPVRGISTTGSLGMGSTTTSTTLRTTTWNIGRSTTASLPGRRNRSTSTPSPAVEVLDDVTTHLPSAASQIPAMEESCEAVEAREIMWFKTRQGQVAKQPCPAGTIGVSTYLCLAPDGIWDPQGPDLSNCSSPWVNHITQKLKSGETAANIARELAEQTRNHLNAGDITYSVRAMDQLVGLLDVQLRNLTPGGKDSAARSLNKLQKRERSCRAYVQVSQVGYQCLFLRNFSFCLCLVFNH
IRESfinder result
IRESfinder score
0.559770297
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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