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mmu_circAdgrb3_288
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgrb3_288
mm39_Chr. Position ID:
chr1|25165721|25170482|-
Gene name:
Adgrb3
Transcript:
ENSMUST00000126626.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,6,5
Exon/intron offsets:
0,2178,4610
Genomic length:
4761
Exon/intron sizes in nt:
67,70,151
Flanking exon/introns:
chr1:25156455-25165721|chr1:25170482-25260840
Splice length:
288
Other database IDs:
circBase: mmu_circ_0000020, CIRCpedia: MMU_CIRCpedia_14396, circAtlas: mmu-Bai3_0079
Human Ortholog IDs:
Mature spliced Sequence:
AGCATCTGCACGACCACCACCGCGTTCCTGCATTTTTTCTTCCTGGCTTCATTCTGTTGGGTCTTGACAGAGGCGTGGCAGTCGTATATGGCTGTGACAGGAAAAATCAGGACCCGGCTTATAAGAAAACGCTTTTTGTGCCTTGGATGGGGGCTGCCAGCTTTAGTAGTGGCCACATCTGTAGGCTTCACTAGGACGAAAGGATACGGCACGGATCACTACTGCTGGCTGTCTCTAGAAGGAGGACTGCTCTATGCCTTCGTTGGACCTGCAGCGGCTGTTGTCCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGACGAAAGGATACGGCAC
59.82
GCCTCTGTCAAGACCCAACA
59.89
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGAGGACTGCTCTATGCCT
59.74
AGCCATATACGACTGCCACG
59.97
142
PCR template sequence:
CACTAGGACGAAAGGATACGGCACGGATCACTACTGCTGGCTGTCTCTAGAAGGAGGACTGCTCTATGCCTTCGTTGGACCTGCAGCGGCTGTTGTCCTGAGCATCTGCACGACCACCACCGCGTTCCTGCATTTTTTCTTCCTGGCTTCATTCTGTTGGGTCTTGACAGAGGCGTGGCAGTCGTATATGGCTGTGACAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
GGCTGTTGTCCTGAGCATCTGCACGA
siRNA sets
GATGCTCAGGACAACAGCC, AGATGCTCAGGACAACAGC, CAGATGCTCAGGACAACAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGRB3_288_ORF_1
0.8866
0.046443012
0.52768247
489
ORF sequence:
ATGGCTGTGACAGGAAAAATCAGGACCCGGCTTATAAGAAAACGCTTTTTGTGCCTTGGATGGGGGCTGCCAGCTTTAGTAGTGGCCACATCTGTAGGCTTCACTAGGACGAAAGGATACGGCACGGATCACTACTGCTGGCTGTCTCTAGAAGGAGGACTGCTCTATGCCTTCGTTGGACCTGCAGCGGCTGTTGTCCTGAGCATCTGCACGACCACCACCGCGTTCCTGCATTTTTTCTTCCTGGCTTCATTCTGTTGGGTCTTGACAGAGGCGTGGCAGTCGTATATGGCTGTGACAGGAAAAATCAGGACCCGGCTTATAAGAAAACGCTTTTTGTGCCTTGGATGGGGGCTGCCAGCTTTAGTAGTGGCCACATCTGTAGGCTTCACTAGGACGAAAGGATACGGCACGGATCACTACTGCTGGCTGTCTCTAGAAGGAGGACTGCTCTATGCCTTCGTTGGACCTGCAGCGGCTGTTGTCCTG
Peptide sequence:
MAVTGKIRTRLIRKRFLCLGWGLPALVVATSVGFTRTKGYGTDHYCWLSLEGGLLYAFVGPAAAVVLSICTTTTAFLHFFFLASFCWVLTEAWQSYMAVTGKIRTRLIRKRFLCLGWGLPALVVATSVGFTRTKGYGTDHYCWLSLEGGLLYAFVGPAAAVVL
IRESfinder result
IRESfinder score
0.38843297
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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