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mmu_circAdgrl3_324
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgrl3_324
mm39_Chr. Position ID:
chr5|81535621|81613151|+
Gene name:
Adgrl3
Transcript:
ENSMUST00000149280.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,7
Exon/intron offsets:
0,77420
Genomic length:
77530
Exon/intron sizes in nt:
2,14,110
Flanking exon/introns:
chr5:81477807-81535621|chr5:81613151-81659830
Splice length:
324
Other database IDs:
circBase: mmu_circ_0012806, CIRCpedia: MMU_CIRCpedia_30800, circAtlas: mmu-Lphn3_0015
circBase: hsa_circ_0126742, circAtlas: hsa-ADGRL3_0018, CIRCpedia: HSA_CIRCpedia_48950
Human Ortholog IDs:
Mature spliced Sequence:
CTTTCAGCCGCGCCCCAATTCCCATGGCAGTGGTCCGCAGAGAGCTCTCCTGTGAGAGCTACCCCATTGAGCTCCGTTGTCCGGGCACAGACGTCATCATGATCGAGAGCGCCAACTACGGGAGGACCGATGACAAGATCTGTGACTCGGACCCTGCTCAGATGGAGAACATTCGGTGTTATCTGCCAGATGCCTATAAGATTATGTCTCAAAGATGCAATAACAGAACCCAGTGTGCAGTGGTGGCAGGTCCTGATGTATTTCCAGACCCATGTCCGGGAACATATAAATACCTTGAAGTGCAGTATGAATGTGTCCCTTATA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTTCCAGACCCATGTCCGG
59.74
CAACGGAGCTCAATGGGGTA
59.75
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTTCCAGACCCATGTCCGG
59.74
AACGGAGCTCAATGGGGTAG
59.46
143
PCR template sequence:
AGAACCCAGTGTGCAGTGGTGGCAGGTCCTGATGTATTTCCAGACCCATGTCCGGGAACATATAAATACCTTGAAGTGCAGTATGAATGTGTCCCTTATACTTTCAGCCGCGCCCCAATTCCCATGGCAGTGGTCCGCAGAGAGCTCTCCTGTGAGAGCTACCCCATTGAGCTCCGTTGTCCGGGCACAGACGTCATCAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-181b-5p(1), mmu-miR-433-3p(1), mmu-miR-680(1), mmu-miR-1198-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTGTCCCTTATACTTTCAGCCGCGC
siRNA sets
GCGGCTGAAAGTATAAGGG,TGAAAGTATAAGGGACACA,CTGAAAGTATAAGGGACAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGRL3_324_ORF_1
0.9302
0.304357649
0.901937172
624
ORF sequence:
ATGGCAGTGGTCCGCAGAGAGCTCTCCTGTGAGAGCTACCCCATTGAGCTCCGTTGTCCGGGCACAGACGTCATCATGATCGAGAGCGCCAACTACGGGAGGACCGATGACAAGATCTGTGACTCGGACCCTGCTCAGATGGAGAACATTCGGTGTTATCTGCCAGATGCCTATAAGATTATGTCTCAAAGATGCAATAACAGAACCCAGTGTGCAGTGGTGGCAGGTCCTGATGTATTTCCAGACCCATGTCCGGGAACATATAAATACCTTGAAGTGCAGTATGAATGTGTCCCTTATACTTTCAGCCGCGCCCCAATTCCCATGGCAGTGGTCCGCAGAGAGCTCTCCTGTGAGAGCTACCCCATTGAGCTCCGTTGTCCGGGCACAGACGTCATCATGATCGAGAGCGCCAACTACGGGAGGACCGATGACAAGATCTGTGACTCGGACCCTGCTCAGATGGAGAACATTCGGTGTTATCTGCCAGATGCCTATAAGATTATGTCTCAAAGATGCAATAACAGAACCCAGTGTGCAGTGGTGGCAGGTCCTGATGTATTTCCAGACCCATGTCCGGGAACATATAAATACCTTGAAGTGCAGTATGAATGTGTCCCTTAT
Peptide sequence:
MAVVRRELSCESYPIELRCPGTDVIMIESANYGRTDDKICDSDPAQMENIRCYLPDAYKIMSQRCNNRTQCAVVAGPDVFPDPCPGTYKYLEVQYECVPYTFSRAPIPMAVVRRELSCESYPIELRCPGTDVIMIESANYGRTDDKICDSDPAQMENIRCYLPDAYKIMSQRCNNRTQCAVVAGPDVFPDPCPGTYKYLEVQYECVPY
IRESfinder result
IRESfinder score
0.235335461
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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