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mmu_circAdgrl3_392
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgrl3_392
mm39_Chr. Position ID:
chr5|81908473|81919527|+
Gene name:
Adgrl3
Transcript:
ENSMUST00000132375.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
22,23,24
Exon/intron offsets:
0,5511,10957
Genomic length:
11054
Exon/intron sizes in nt:
169,126,97
Flanking exon/introns:
chr5:81905859-81908473|chr5:81919527-81942110
Splice length:
392
Other database IDs:
CIRCpedia: MMU_CIRCpedia_30939, circAtlas: mmu-Lphn3_0002
circBase: hsa_circ_0126779, circAtlas: hsa-ADGRL3_0002, CIRCpedia: HSA_CIRCpedia_123957
Human Ortholog IDs:
Mature spliced Sequence:
GTCATGGGTTATAGGTGCAATAGCTCTGCTCTGCCTGTTAGGATTGACCTGGGCCTTTGGACTCATGTATATTAATGAAAGCACAGTCATCATGGCGTATCTCTTCACCATTTTCAATTCTCTACAGGGAATGTTTATATTCATTTTCCACTGTGTTCTACAGAAGAAGGTACGGAAAGAGTATGGGAAATGCCTCCGCACGCATTGCTGTAGTGGGAAAAGCACGGAGAGTTCGATTGGCTCAGGGAAAACATCTGGTTCTCGAACTCCAGGACGGTACTCCACAGGCTCGCAGAGCCGGATTCGGAGAATGTGGAATGACACTGTCCGAAAGCAGTCAGAGTCGTCCTTCATCACCGGAGACATAAACAGCTCAGCATCGCTCAACAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGAAAGCAGTCAGAGTCGT
60.04
ACGCCATGATGACTGTGCTT
60.32
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGTCCTTCATCACCGGAGAC
60.18
ACGCCATGATGACTGTGCTT
60.32
146
PCR template sequence:
CAGAGCCGGATTCGGAGAATGTGGAATGACACTGTCCGAAAGCAGTCAGAGTCGTCCTTCATCACCGGAGACATAAACAGCTCAGCATCGCTCAACAGAGGTCATGGGTTATAGGTGCAATAGCTCTGCTCTGCCTGTTAGGATTGACCTGGGCCTTTGGACTCATGTATATTAATGAAAGCACAGTCATCATGGCGTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-92a-3p(1), mmu-miR-25-3p(1), mmu-miR-363-3p(1), mmu-miR-125a-5p(1), mmu-miR-676-3p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCGCTCAACAGAGGTCATGGGTTATA
siRNA sets
TATAACCCATGACCTCTGT,ATAACCCATGACCTCTGTT,TAACCCATGACCTCTGTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGRL3_392_ORF_1
0.6431
0.126926706
0.253770296
342
ORF sequence:
ATGTATATTAATGAAAGCACAGTCATCATGGCGTATCTCTTCACCATTTTCAATTCTCTACAGGGAATGTTTATATTCATTTTCCACTGTGTTCTACAGAAGAAGGTACGGAAAGAGTATGGGAAATGCCTCCGCACGCATTGCTGTAGTGGGAAAAGCACGGAGAGTTCGATTGGCTCAGGGAAAACATCTGGTTCTCGAACTCCAGGACGGTACTCCACAGGCTCGCAGAGCCGGATTCGGAGAATGTGGAATGACACTGTCCGAAAGCAGTCAGAGTCGTCCTTCATCACCGGAGACATAAACAGCTCAGCATCGCTCAACAGAGGTCATGGGTTATAG
Peptide sequence:
MYINESTVIMAYLFTIFNSLQGMFIFIFHCVLQKKVRKEYGKCLRTHCCSGKSTESSIGSGKTSGSRTPGRYSTGSQSRIRRMWNDTVRKQSESSFITGDINSSASLNRGHGL
IRESfinder result
IRESfinder score
0.476044964
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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