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mmu_circAdgrl3_418
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgrl3_418
mm39_Chr. Position ID:
chr5|81477603|81535835|+
Gene name:
Adgrl3
Transcript:
ENSMUST00000149280.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,6
Exon/intron offsets:
0,58018
Genomic length:
58232
Exon/intron sizes in nt:
204,214
Flanking exon/introns:
chr5:81457926-81477603|chr5:81535835-81613041
Splice length:
418
Other database IDs:
circBase: mmu_circ_0012805, CIRCpedia: MMU_CIRCpedia_30767, circAtlas: mmu-Lphn3_0021
circBase: hsa_circ_0126739, circAtlas: hsa-ADGRL3_0021, CIRCpedia: HSA_CIRCpedia_48949
Human Ortholog IDs:
Mature spliced Sequence:
GTGGCAAGCACAATGAGAGACATCCAGCCCTCGCTGCTCCACTGCGACACGCTGAGCGCAGCCCAGGAGGCGCTCTCCCTCCCAGACATCTCCTTCAGCAGCCAGCGGCAGAGCGCTCAACGGCTCATCGAGGACAGGGGCCACGCGGAGCTGCCAGAGGAGTCCGTGGACCAGGTGCCCCAGGAGCACAGATTGCAGCCCAAGCTTTCAGCCGCGCCCCAATTCCCATGGCAGTGGTCCGCAGAGAGCTCTCCTGTGAGAGCTACCCCATTGAGCTCCGTTGTCCGGGCACAGACGTCATCATGATCGAGAGCGCCAACTACGGGAGGACCGATGACAAGATCTGTGACTCGGACCCTGCTCAGATGGAGAACATTCGGTGTTATCTGCCAGATGCCTATAAGATTATGTCTCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGATCTGTGACTCGGACCCT
59.67
GGAGATGTCTGGGAGGGAGA
59.74
172
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGATCTGTGACTCGGACCCT
59.67
AGGAGATGTCTGGGAGGGAG
59.74
173
PCR template sequence:
ACTACGGGAGGACCGATGACAAGATCTGTGACTCGGACCCTGCTCAGATGGAGAACATTCGGTGTTATCTGCCAGATGCCTATAAGATTATGTCTCAAAGGTGGCAAGCACAATGAGAGACATCCAGCCCTCGCTGCTCCACTGCGACACGCTGAGCGCAGCCCAGGAGGCGCTCTCCCTCCCAGACATCTCCTTCAGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-339-5p(1), mmu-miR-503-5p(1), mmu-miR-433-3p(1), mmu-miR-680(1), mmu-miR-339-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTATGTCTCAAAGGTGGCAAGCACAA
siRNA sets
TTGTGCTTGCCACCTTTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGRL3_418_ORF_1
0.8049
0.241798643
0.698072818
501
ORF sequence:
ATGACAAGATCTGTGACTCGGACCCTGCTCAGATGGAGAACATTCGGTGTTATCTGCCAGATGCCTATAAGATTATGTCTCAAAGGTGGCAAGCACAATGAGAGACATCCAGCCCTCGCTGCTCCACTGCGACACGCTGAGCGCAGCCCAGGAGGCGCTCTCCCTCCCAGACATCTCCTTCAGCAGCCAGCGGCAGAGCGCTCAACGGCTCATCGAGGACAGGGGCCACGCGGAGCTGCCAGAGGAGTCCGTGGACCAGGTGCCCCAGGAGCACAGATTGCAGCCCAAGCTTTCAGCCGCGCCCCAATTCCCATGGCAGTGGTCCGCAGAGAGCTCTCCTGTGAGAGCTACCCCATTGAGCTCCGTTGTCCGGGCACAGACGTCATCATGATCGAGAGCGCCAACTACGGGAGGACCGATGACAAGATCTGTGACTCGGACCCTGCTCAGATGGAGAACATTCGGTGTTATCTGCCAGATGCCTATAAGATTATGTCTCAA
Peptide sequence:
MTRSVTRTLLRWRTFGVICQMPIRLCLKGGKHNERHPALAAPLRHAERSPGGALPPRHLLQQPAAERSTAHRGQGPRGAARGVRGPGAPGAQIAAQAFSRAPIPMAVVRRELSCESYPIELRCPGTDVIMIESANYGRTDDKICDSDPAQMENIRCYLPDAYKIMSQ
IRESfinder result
IRESfinder score
0.182462208
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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