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mmu_circAdgrl3_1313
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgrl3_1313
mm39_Chr. Position ID:
chr5|81215537|81708790|+
Gene name:
Adgrl3
Transcript:
ENSMUST00000132375.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
2,3,4,5,6,7,8
Exon/intron offsets:
0,129875,242180,397504,442033,444293,493172
Genomic length:
493253
Exon/intron sizes in nt:
31,66,209,110,15,801,81
Flanking exon/introns:
chr5:81169192-81215537|chr5:81708790-81794256
Splice length:
1313
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATGCTGATTTGAAGAACTGCCCTGAAAACTGAAATGATTAATTCAGAAAGGCAGAAGACAAAGCTATGGATTTTTAGCAGTCACAGAACAAATTAAGGTGTCTCAAGTGGGATATCAGTGTTTATTTTTGAGGAATTTTTCTTTCTGTTTGTGTTTGGTTTTTAATCATTGATATTGGAGTACTGAAGAGGAGCCAGAAGTCTATTGATTTGGTTTCACTTCAGACCAGCCATTCCTCCGAGAACACAGTCATGTGGCCACCACAGCTACTCATCCTCACGATGCTTTTAGCACCTGTAGTTCATGATGCAATAACAGAACCCAGTGTGCAGTGGTGGCAGGTCCTGATGTATTTCCAGACCCATGTCCGGGAACATATAAATACCTTGAAGTGCAGTATGAATGTGTCCCTTATAAAGTGGAACAAAAAGTTTTTCTTTGTCCTGGACTGCTAAAAGGAGTGTACCAGAGTGAACACTTGTTTGAATCTGACCACCAATCTGGGGCATGGTGCAAGGACCCTCTACAGGCTTCTGACAAGATTTACTATATGCCCTGGACTCCCTACAGAACTGACACCCTGACAGAGTATTCGTCCAAAGATGACTTCATTGCTGGAAGGCCAACAACTACCTACAAGCTCCCTCACAGAGTGGATGGCACTGGATTTGTAGTATACGATGGTGCCCTCTTCTTCAACAAGGAGCGGACAAGGAACATTGTAAAGTTTGATTTGAGGACTAGGATAAAGAGTGGAGAGGCAATCATAGCAAATGCTAATTACCATGACACCTCCCCATACCGATGGGGTGGCAAGTCCGACATAGACTTGGCAGTGGATGAAAATGGATTATGGGTAATCTATGCAACAGAACAGAACAATGGCAAGATTGTCATTAGCCAGTTGAACCCTTACACCCTACGGATTGAGGGGACATGGGACACTGCCTATGATAAAAGGTCAGCTTCCAATGCATTCATGATTTGTGGGATTCTGTATGTGGTCAAATCTGTATATGAGGATGATGACAACGAGGCCACCGGTAATAAGATTGACTACATTTACAACACTGACCAAAGCAAGGATAGCTTGGTGGATGTACCCTTTCCCAACTCTTACCAGTACATAGCAGCTGTGGATTACAATCCCAGGGACAATCTGCTCTATGTGTGGAATAACTACCACGTTGTGAAATACTCTTTGGACTTCGGGCCTCTGGATAGTAGATCAGGGCCGGTACATCATGGACAAGTCTCCTACATCTCTCCACCAATTCACCTCGACTCTGAACTAGAAAGGCCCCCTGTCAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCGGTACATCATGGACAA
60.11
TCCATAGCTTTGTCTTCTGCCT
59.43
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTAGATCAGGGCCGGTACA
59.74
TCCATAGCTTTGTCTTCTGCCT
59.43
161
PCR template sequence:
CCTCTGGATAGTAGATCAGGGCCGGTACATCATGGACAAGTCTCCTACATCTCTCCACCAATTCACCTCGACTCTGAACTAGAAAGGCCCCCTGTCAGAGATGCTGATTTGAAGAACTGCCCTGAAAACTGAAATGATTAATTCAGAAAGGCAGAAGACAAAGCTATGGATTTTTAGCAGTCACAGAACAAATTAAGGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-134-5p(1), mmu-miR-34a-5p(1), mmu-miR-33-5p(1), mmu-miR-181b-5p(1), mmu-miR-149-5p(1), mmu-miR-1198-5p(1), mmu-miR-335-3p(1), mmu-miR-3470b(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCCCTGTCAGAGATGCTGATTTGAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGRL3_1313_ORF_1
0.9803
0.242184941
0.962518023
795
ORF sequence:
ATGCCCTGGACTCCCTACAGAACTGACACCCTGACAGAGTATTCGTCCAAAGATGACTTCATTGCTGGAAGGCCAACAACTACCTACAAGCTCCCTCACAGAGTGGATGGCACTGGATTTGTAGTATACGATGGTGCCCTCTTCTTCAACAAGGAGCGGACAAGGAACATTGTAAAGTTTGATTTGAGGACTAGGATAAAGAGTGGAGAGGCAATCATAGCAAATGCTAATTACCATGACACCTCCCCATACCGATGGGGTGGCAAGTCCGACATAGACTTGGCAGTGGATGAAAATGGATTATGGGTAATCTATGCAACAGAACAGAACAATGGCAAGATTGTCATTAGCCAGTTGAACCCTTACACCCTACGGATTGAGGGGACATGGGACACTGCCTATGATAAAAGGTCAGCTTCCAATGCATTCATGATTTGTGGGATTCTGTATGTGGTCAAATCTGTATATGAGGATGATGACAACGAGGCCACCGGTAATAAGATTGACTACATTTACAACACTGACCAAAGCAAGGATAGCTTGGTGGATGTACCCTTTCCCAACTCTTACCAGTACATAGCAGCTGTGGATTACAATCCCAGGGACAATCTGCTCTATGTGTGGAATAACTACCACGTTGTGAAATACTCTTTGGACTTCGGGCCTCTGGATAGTAGATCAGGGCCGGTACATCATGGACAAGTCTCCTACATCTCTCCACCAATTCACCTCGACTCTGAACTAGAAAGGCCCCCTGTCAGAGATGCTGATTTGAAGAACTGCCCTGAAAACTGA
Peptide sequence:
MPWTPYRTDTLTEYSSKDDFIAGRPTTTYKLPHRVDGTGFVVYDGALFFNKERTRNIVKFDLRTRIKSGEAIIANANYHDTSPYRWGGKSDIDLAVDENGLWVIYATEQNNGKIVISQLNPYTLRIEGTWDTAYDKRSASNAFMICGILYVVKSVYEDDDNEATGNKIDYIYNTDQSKDSLVDVPFPNSYQYIAAVDYNPRDNLLYVWNNYHVVKYSLDFGPLDSRSGPVHHGQVSYISPPIHLDSELERPPVRDADLKNCPEN
IRESfinder result
IRESfinder score
0.694188009
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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