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mmu_circAdgrl3_578
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgrl3_578
mm39_Chr. Position ID:
chr5|81886873|81919527|+
Gene name:
Adgrl3
Transcript:
ENSMUST00000132375.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
19,20,21,22,23,24
Exon/intron offsets:
0,2028,18959,21600,27111,32557
Genomic length:
32654
Exon/intron sizes in nt:
67,92,27,169,126,97
Flanking exon/introns:
chr5:81874736-81886873|chr5:81919527-81942110
Splice length:
578
Other database IDs:
circBase: mmu_circ_0012818, CIRCpedia: MMU_CIRCpedia_30934, circAtlas: mmu-Lphn3_0008
circBase: hsa_circ_0126776, circAtlas: hsa-ADGRL3_0006, CIRCpedia: HSA_CIRCpedia_123955
Human Ortholog IDs:
Mature spliced Sequence:
ATGTTGGCTTCGCCTTGACACCTACTTCATTTGGAGTTTTATAGGACCGGCGACCTTGATAATTATGCTGAATGTCATCTTCCTTGGGATTGCTTTATACAAAATGTTTCACCATACTGCCATACTGAAACCTGAATCAGGCTGTCTTGACAATATCAACTATGAGGATAACAGACCCTTCATCAAGTCATGGGTTATAGGTGCAATAGCTCTGCTCTGCCTGTTAGGATTGACCTGGGCCTTTGGACTCATGTATATTAATGAAAGCACAGTCATCATGGCGTATCTCTTCACCATTTTCAATTCTCTACAGGGAATGTTTATATTCATTTTCCACTGTGTTCTACAGAAGAAGGTACGGAAAGAGTATGGGAAATGCCTCCGCACGCATTGCTGTAGTGGGAAAAGCACGGAGAGTTCGATTGGCTCAGGGAAAACATCTGGTTCTCGAACTCCAGGACGGTACTCCACAGGCTCGCAGAGCCGGATTCGGAGAATGTGGAATGACACTGTCCGAAAGCAGTCAGAGTCGTCCTTCATCACCGGAGACATAAACAGCTCAGCATCGCTCAACAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGAATGACACTGTCCGA
58.96
ATTATCAAGGTCGCCGGTCC
59.89
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGAATGACACTGTCCGA
58.96
TCAAGGTCGCCGGTCCTATA
60.11
140
PCR template sequence:
CAGAGCCGGATTCGGAGAATGTGGAATGACACTGTCCGAAAGCAGTCAGAGTCGTCCTTCATCACCGGAGACATAAACAGCTCAGCATCGCTCAACAGAGATGTTGGCTTCGCCTTGACACCTACTTCATTTGGAGTTTTATAGGACCGGCGACCTTGATAATTATGCTGAATGTCATCTTCCTTGGGATTGCTTTATAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
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-340-5p(1), mmu-miR-670-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCGCTCAACAGAGATGTTGGCTTCGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGRL3_578_ORF_1
0.643
0.106201772
0.595442693
558
ORF sequence:
ATGCTGAATGTCATCTTCCTTGGGATTGCTTTATACAAAATGTTTCACCATACTGCCATACTGAAACCTGAATCAGGCTGTCTTGACAATATCAACTATGAGGATAACAGACCCTTCATCAAGTCATGGGTTATAGGTGCAATAGCTCTGCTCTGCCTGTTAGGATTGACCTGGGCCTTTGGACTCATGTATATTAATGAAAGCACAGTCATCATGGCGTATCTCTTCACCATTTTCAATTCTCTACAGGGAATGTTTATATTCATTTTCCACTGTGTTCTACAGAAGAAGGTACGGAAAGAGTATGGGAAATGCCTCCGCACGCATTGCTGTAGTGGGAAAAGCACGGAGAGTTCGATTGGCTCAGGGAAAACATCTGGTTCTCGAACTCCAGGACGGTACTCCACAGGCTCGCAGAGCCGGATTCGGAGAATGTGGAATGACACTGTCCGAAAGCAGTCAGAGTCGTCCTTCATCACCGGAGACATAAACAGCTCAGCATCGCTCAACAGAGATGTTGGCTTCGCCTTGACACCTACTTCATTTGGAGTTTTATAG
Peptide sequence:
MLNVIFLGIALYKMFHHTAILKPESGCLDNINYEDNRPFIKSWVIGAIALLCLLGLTWAFGLMYINESTVIMAYLFTIFNSLQGMFIFIFHCVLQKKVRKEYGKCLRTHCCSGKSTESSIGSGKTSGSRTPGRYSTGSQSRIRRMWNDTVRKQSESSFITGDINSSASLNRDVGFALTPTSFGVL
IRESfinder result
IRESfinder score
0.594728065
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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