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mmu_circAdgrl3_488
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgrl3_488
mm39_Chr. Position ID:
chr5|81708709|81796579|+
Gene name:
Adgrl3
Transcript:
ENSMUST00000132375.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,9,10
Exon/intron offsets:
0,85547,87766
Genomic length:
87870
Exon/intron sizes in nt:
8,13,03,104
Flanking exon/introns:
chr5:81660631-81708709|chr5:81796579-81808108
Splice length:
488
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGCCGGTACATCATGGACAAGTCTCCTACATCTCTCCACCAATTCACCTCGACTCTGAACTAGAAAGGCCCCCTGTCAGAGGGATTTCTACCACAGGATCCCTGGGTATGGGAAGCACGACCACCAGCACCACCCTCCGGACCACAACCTGGAACATAGGCAGGAGTACCACCGCATCCTTGCCGGGCAGAAGAAACCGCAGTACCAGCACGCCATCCCCCGCGGTAGAGGTGCTGGATGACGTCACCACACACCTGCCCTCGGCAGCCTCCCAAATCCCAGCTATGGAAGAGAGCTGCGAGGCTGTGGAAGCCCGAGAAATCATGTGGTTTAAGACCAGACAGGGGCAGGTAGCAAAGCAGCCATGCCCAGCAGGAACCATAGGTGTATCAACTTACCTATGTCTTGCTCCTGATGGAATATGGGACCCCCAAGGACCAGATCTCAGCAACTGCTCTTCTCCTTGGGTCAATCACATAACACAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCCAAGGACCAGATCTCA
60.62
TCTGACAGGGGGCCTTTCTA
59.88
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCCCAAGGACCAGATCTC
60.62
TCTGACAGGGGGCCTTTCTA
59.88
142
PCR template sequence:
ATCAACTTACCTATGTCTTGCTCCTGATGGAATATGGGACCCCCAAGGACCAGATCTCAGCAACTGCTCTTCTCCTTGGGTCAATCACATAACACAGAAGGGCCGGTACATCATGGACAAGTCTCCTACATCTCTCCACCAATTCACCTCGACTCTGAACTAGAAAGGCCCCCTGTCAGAGGGATTTCTACCACAGGATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-138-5p(1), mmu-miR-370-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATAACACAGAAGGGCCGGTACATCA
siRNA sets
TGATGTACCGGCCCTTCTG, GATGTACCGGCCCTTCTGT, ATGTACCGGCCCTTCTGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGRL3_488_ORF_1
0.6678
0.11485886
0.610778166
555
ORF sequence:
ATGGGACCCCCAAGGACCAGATCTCAGCAACTGCTCTTCTCCTTGGGTCAATCACATAACACAGAAGGGCCGGTACATCATGGACAAGTCTCCTACATCTCTCCACCAATTCACCTCGACTCTGAACTAGAAAGGCCCCCTGTCAGAGGGATTTCTACCACAGGATCCCTGGGTATGGGAAGCACGACCACCAGCACCACCCTCCGGACCACAACCTGGAACATAGGCAGGAGTACCACCGCATCCTTGCCGGGCAGAAGAAACCGCAGTACCAGCACGCCATCCCCCGCGGTAGAGGTGCTGGATGACGTCACCACACACCTGCCCTCGGCAGCCTCCCAAATCCCAGCTATGGAAGAGAGCTGCGAGGCTGTGGAAGCCCGAGAAATCATGTGGTTTAAGACCAGACAGGGGCAGGTAGCAAAGCAGCCATGCCCAGCAGGAACCATAGGTGTATCAACTTACCTATGTCTTGCTCCTGATGGAATATGGGACCCCCAAGGACCAGATCTCAGCAACTGCTCTTCTCCTTGGGTCAATCACATAACACAGAAG
Peptide sequence:
MGPPRTRSQQLLFSLGQSHNTEGPVHHGQVSYISPPIHLDSELERPPVRGISTTGSLGMGSTTTSTTLRTTTWNIGRSTTASLPGRRNRSTSTPSPAVEVLDDVTTHLPSAASQIPAMEESCEAVEAREIMWFKTRQGQVAKQPCPAGTIGVSTYLCLAPDGIWDPQGPDLSNCSSPWVNHITQK
IRESfinder result
IRESfinder score
0.401277828
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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