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mmu_circAdgrb3_657
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgrb3_657
mm39_Chr. Position ID:
chr1|25570950|25592917|-
Gene name:
Adgrb3
Transcript:
ENSMUST00000146592.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,605,15546,21805
Genomic length:
21967
Exon/intron sizes in nt:
1,65,16,51,65,162
Flanking exon/introns:
chr1:25544095-25570950|chr1:25592917-25598835
Splice length:
657
Other database IDs:
CIRCpedia: MMU_CIRCpedia_14557, circAtlas: mmu-Bai3_0026
circBase: hsa_circ_0132093, circAtlas: hsa-ADGRB3_0034
Human Ortholog IDs:
Mature spliced Sequence:
GTGAATCTGGTGTGGAAGAGTGGTCCCAGTGGAGCGCATGCTCAGTTACTTGTGGTCAAGGGTCGCAGGTGCGAACCAGAACTTGTGTATCACCTTACGGGACACACTGCAGCGGCCCATTAAGAGAATCAAGGGTTTGCAATAACACTGCCCTCTGTCCAGTACATGGAGTTTGGGAGGAATGGTCACCTTGGAGCTTATGCTCCTTCACATGTGGCCGAGGCCAAAGAACACGAACCAGGTCATGCACACCTCCTCAGTATGGAGGAAGGCCCTGTGAGGGACCTGAAACTCATCACAAGCCTTGTAATATTGCCCTCTGTCCAGTTGACGGACAGTGGCAGGAATGGAGTTCATGGAGCCACTGCTCAGTGACATGTTCTAATGGGACACAGCAGAGGAGTCGGCAGTGCACAGCAGCTGCTCATGGAGGCTCTGAGTGCCGAGGACCATGGGCTGAAAGCAGGGAGTGCTACAACCCTGAATGTACAGCCAATGGTCAGTGGAATCAGTGGGGTCACTGGAGTGGATGTTCCAAGTCCTGTGATGGTGGCTGGGAGAGGAGAATGAGGACTTGTCAGGGCGCAGCTGTAACAGGACAGCAGTGTGAAGGCACAGGTGAAGAGGTACGAAGATGCAGTGAGCAGCGGTGCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATGAGGACTTGTCAGGGCG
60.04
ACAAGTTCTGGTTCGCACCT
59.82
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGGACAGCAGTGTGAAGG
59.89
ACAAGTTCTGGTTCGCACCT
59.82
150
PCR template sequence:
GAGAGGAGAATGAGGACTTGTCAGGGCGCAGCTGTAACAGGACAGCAGTGTGAAGGCACAGGTGAAGAGGTACGAAGATGCAGTGAGCAGCGGTGCCCAGGTGAATCTGGTGTGGAAGAGTGGTCCCAGTGGAGCGCATGCTCAGTTACTTGTGGTCAAGGGTCGCAGGTGCGAACCAGAACTTGTGTATCACCTTACGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(1), mmu-miR-150-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-181b-5p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-34b-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCGGTGCCCAGGTGAATCTGGTGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGRB3_657_ORF_1
0.9637
-0.029371402
0.85678388
747
ORF sequence:
ATGAGGACTTGTCAGGGCGCAGCTGTAACAGGACAGCAGTGTGAAGGCACAGGTGAAGAGGTACGAAGATGCAGTGAGCAGCGGTGCCCAGGTGAATCTGGTGTGGAAGAGTGGTCCCAGTGGAGCGCATGCTCAGTTACTTGTGGTCAAGGGTCGCAGGTGCGAACCAGAACTTGTGTATCACCTTACGGGACACACTGCAGCGGCCCATTAAGAGAATCAAGGGTTTGCAATAACACTGCCCTCTGTCCAGTACATGGAGTTTGGGAGGAATGGTCACCTTGGAGCTTATGCTCCTTCACATGTGGCCGAGGCCAAAGAACACGAACCAGGTCATGCACACCTCCTCAGTATGGAGGAAGGCCCTGTGAGGGACCTGAAACTCATCACAAGCCTTGTAATATTGCCCTCTGTCCAGTTGACGGACAGTGGCAGGAATGGAGTTCATGGAGCCACTGCTCAGTGACATGTTCTAATGGGACACAGCAGAGGAGTCGGCAGTGCACAGCAGCTGCTCATGGAGGCTCTGAGTGCCGAGGACCATGGGCTGAAAGCAGGGAGTGCTACAACCCTGAATGTACAGCCAATGGTCAGTGGAATCAGTGGGGTCACTGGAGTGGATGTTCCAAGTCCTGTGATGGTGGCTGGGAGAGGAGAATGAGGACTTGTCAGGGCGCAGCTGTAACAGGACAGCAGTGTGAAGGCACAGGTGAAGAGGTACGAAGATGCAGTGAGCAGCGGTGCCCA
Peptide sequence:
MRTCQGAAVTGQQCEGTGEEVRRCSEQRCPGESGVEEWSQWSACSVTCGQGSQVRTRTCVSPYGTHCSGPLRESRVCNNTALCPVHGVWEEWSPWSLCSFTCGRGQRTRTRSCTPPQYGGRPCEGPETHHKPCNIALCPVDGQWQEWSSWSHCSVTCSNGTQQRSRQCTAAAHGGSECRGPWAESRECYNPECTANGQWNQWGHWSGCSKSCDGGWERRMRTCQGAAVTGQQCEGTGEEVRRCSEQRCP
IRESfinder result
IRESfinder score
0.464610156
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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