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mmu_circAdgrb3_785
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgrb3_785
mm39_Chr. Position ID:
chr1|25113765|25133489|-
Gene name:
Adgrb3
Transcript:
ENSMUST00000126626.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
15,14,13
Exon/intron offsets:
0,9559,19080
Genomic length:
19724
Exon/intron sizes in nt:
1,05,36,644
Flanking exon/introns:
chr1:25107437-25113765|chr1:25133489-25137956
Splice length:
785
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
TGCTTCATAAGGATATCGGCCCCTGCCGCGCAGCAACCATAACAGGAACACTCTCCAGGATTTCTCTAAATGATGATGAGGAAGAAAAGGGAACAAACCCTGAAGGGCTAAGCTACTCAACATTGCCTGGAAATGTCATTTCCAAAGTCATCATTCAACAGCCCACAGGCCTGCACATGCCTATGAGTATGAACGAGCTAAGCAATCCGTGTCTGAAAAAAGAGAACACTGAACTGCGGAGAACTGTGTACTTATGCACGGATGACAATCTGAGAGGGGCCGATATGGACATTGTCCACCCCCAAGAACGAATGATGGAAAGTGACTATATTGTGATGCCTAGAAGTTCTGTAAGCACCCAGCCATCAATGAAAGAGGAGAGCAAGATGAATATTGGCATGGAAACCTTGCCGCATGAAAGGCTATTACACTACAAAGTAAACCCTGAATTCAATATGAATCCCCCCGTAATGGACCAGTTTAATATGAACTTAGATCAGCATCTTGCACCCCAGGAACATATGCAGAATTTACCCTTTGAGCCTCGCACAGCTGTGAAGAATTTCATGGCCTCTGAGTTGGATGATAATGTGGGACTGTCAAGAAGTGAAACTGGATCAACGATATCAATGAGTTCTCTAGAGAGAAGAAAATCGCGGTATTCTGACCTTGACTTTGAGAAGGTCATGCACACAAGGAAGAGGCACATGGAATTGTTTCAGGAACTAAATCAGAAGTTTCAGACTTTGGACAGATTTCGGGACATACCAAACACAAGCAGTATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGCACACAAGGAAGAGGCA
59.89
GTTCCTGTTATGGTTGCTGCG
60.14
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGCACACAAGGAAGAGGCA
59.89
CCTGTTATGGTTGCTGCGC
59.86
145
PCR template sequence:
CATGCACACAAGGAAGAGGCACATGGAATTGTTTCAGGAACTAAATCAGAAGTTTCAGACTTTGGACAGATTTCGGGACATACCAAACACAAGCAGTATGTGCTTCATAAGGATATCGGCCCCTGCCGCGCAGCAACCATAACAGGAACACTCTCCAGGATTTCTCTAAATGATGATGAGGAAGAAAAGGGAACAAACCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-669d-5p(2), mmu-miR-31-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-18a-5p(1), mmu-miR-342-5p(1), mmu-miR-1198-5p(1), mmu-miR-673-5p(1), mmu-miR-539-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CACAAGCAGTATGTGCTTCATAAGGA
siRNA sets
CTTATGAAGCACATACTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGRB3_785_ORF_1
1.043
0.124641307
0.866138724
651
ORF sequence:
ATGCCTATGAGTATGAACGAGCTAAGCAATCCGTGTCTGAAAAAAGAGAACACTGAACTGCGGAGAACTGTGTACTTATGCACGGATGACAATCTGAGAGGGGCCGATATGGACATTGTCCACCCCCAAGAACGAATGATGGAAAGTGACTATATTGTGATGCCTAGAAGTTCTGTAAGCACCCAGCCATCAATGAAAGAGGAGAGCAAGATGAATATTGGCATGGAAACCTTGCCGCATGAAAGGCTATTACACTACAAAGTAAACCCTGAATTCAATATGAATCCCCCCGTAATGGACCAGTTTAATATGAACTTAGATCAGCATCTTGCACCCCAGGAACATATGCAGAATTTACCCTTTGAGCCTCGCACAGCTGTGAAGAATTTCATGGCCTCTGAGTTGGATGATAATGTGGGACTGTCAAGAAGTGAAACTGGATCAACGATATCAATGAGTTCTCTAGAGAGAAGAAAATCGCGGTATTCTGACCTTGACTTTGAGAAGGTCATGCACACAAGGAAGAGGCACATGGAATTGTTTCAGGAACTAAATCAGAAGTTTCAGACTTTGGACAGATTTCGGGACATACCAAACACAAGCAGTATGTGCTTCATAAGGATATCGGCCCCTGCCGCGCAGCAACCATAA
Peptide sequence:
MPMSMNELSNPCLKKENTELRRTVYLCTDDNLRGADMDIVHPQERMMESDYIVMPRSSVSTQPSMKEESKMNIGMETLPHERLLHYKVNPEFNMNPPVMDQFNMNLDQHLAPQEHMQNLPFEPRTAVKNFMASELDDNVGLSRSETGSTISMSSLERRKSRYSDLDFEKVMHTRKRHMELFQELNQKFQTLDRFRDIPNTSSMCFIRISAPAAQQP
IRESfinder result
IRESfinder score
0.467567475
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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