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mmu_circArid1b_312
Basic information of circular RNA
PanCircBase ID:
mmu_circArid1b_312
mm39_Chr. Position ID:
chr17|5377550|5378096|+
Gene name:
Arid1b
Transcript:
ENSMUST00000092723.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
13,14
Exon/intron offsets:
0,373
Genomic length:
546
Exon/intron sizes in nt:
1,39,173
Flanking exon/introns:
chr17:5371752-5377550|chr17:5378096-5382761
Splice length:
312
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTAACTCAGGATCCTTACAAGGCCCACAGACTCCACAGTCAACTGGGAGCAATTCGATGGCAGAGGTTCCAGGTGACCTGAAGCCACCAACCCCAGCCTCTACCCCTCATGGACAGATGACTCCCATGCAAAGCGGAAGAAGCAGTACAGTCAGTGTGCATGACCCGTTCTCAGACGTGAGTGACTCAGCGTACCCAAAACGGAACTCCATGACTCCAAACGCCCCATACCAGCAGGGCATGGGCATGCCAGACATGATGGGCAGGATGCCCTATGAACCCAACAAGGACCCTTTCAGTGGAATGAGAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCAAACGCCCCATACCAG
60.75
TTGCTCCCAGTTGACTGTGG
60.18
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCAAACGCCCCATACCAG
60.75
CTGGAACCTCTGCCATCGAA
59.75
171
PCR template sequence:
ACTCCAAACGCCCCATACCAGCAGGGCATGGGCATGCCAGACATGATGGGCAGGATGCCCTATGAACCCAACAAGGACCCTTTCAGTGGAATGAGAAAAGCTAACTCAGGATCCTTACAAGGCCCACAGACTCCACAGTCAACTGGGAGCAATTCGATGGCAGAGGTTCCAGGTGACCTGAAGCCACCAACCCCAGCCTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-370-3p(1), mmu-miR-1199-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAATGAGAAAAGCTAACTCAGGATC
siRNA sets
ATCCTGAGTTAGCTTTTCT, GATCCTGAGTTAGCTTTTC, AGTTAGCTTTTCTCATTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARID1B_312_ORF_1
0.6617
0.285049841
0.773798941
567
ORF sequence:
ATGGCAGAGGTTCCAGGTGACCTGAAGCCACCAACCCCAGCCTCTACCCCTCATGGACAGATGACTCCCATGCAAAGCGGAAGAAGCAGTACAGTCAGTGTGCATGACCCGTTCTCAGACGTGAGTGACTCAGCGTACCCAAAACGGAACTCCATGACTCCAAACGCCCCATACCAGCAGGGCATGGGCATGCCAGACATGATGGGCAGGATGCCCTATGAACCCAACAAGGACCCTTTCAGTGGAATGAGAAAAGCTAACTCAGGATCCTTACAAGGCCCACAGACTCCACAGTCAACTGGGAGCAATTCGATGGCAGAGGTTCCAGGTGACCTGAAGCCACCAACCCCAGCCTCTACCCCTCATGGACAGATGACTCCCATGCAAAGCGGAAGAAGCAGTACAGTCAGTGTGCATGACCCGTTCTCAGACGTGAGTGACTCAGCGTACCCAAAACGGAACTCCATGACTCCAAACGCCCCATACCAGCAGGGCATGGGCATGCCAGACATGATGGGCAGGATGCCCTATGAACCCAACAAGGACCCTTTCAGTGGAATGAGAAAA
Peptide sequence:
MAEVPGDLKPPTPASTPHGQMTPMQSGRSSTVSVHDPFSDVSDSAYPKRNSMTPNAPYQQGMGMPDMMGRMPYEPNKDPFSGMRKANSGSLQGPQTPQSTGSNSMAEVPGDLKPPTPASTPHGQMTPMQSGRSSTVSVHDPFSDVSDSAYPKRNSMTPNAPYQQGMGMPDMMGRMPYEPNKDPFSGMRK
IRESfinder result
IRESfinder score
0.160602624
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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