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mmu_circRbl2_568
Basic information of circular RNA
PanCircBase ID:
mmu_circRbl2_568
mm39_Chr. Position ID:
chr8|91813610|91823495|+
Gene name:
Rbl2
Transcript:
ENSMUST00000034091.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,9,10,11
Exon/intron offsets:
0,3072,8566,9781
Genomic length:
9885
Exon/intron sizes in nt:
1,87,16,71,10,104
Flanking exon/introns:
chr8:91812367-91813610|chr8:91823495-91826667
Splice length:
568
Other database IDs:
CIRCpedia: MMU_CIRCpedia_33981, circAtlas: mmu-Rbl2_0019
circAtlas: hsa-RBL2_0075, CIRCpedia: HSA_CIRCpedia_371360
Human Ortholog IDs:
Mature spliced Sequence:
TAAGGCCGTTAATAAGGCATATGAAGAATACGTGTTAGCCGCTGGGAATCTGGATGAGCGCGTATTCCTTGGTGAGGATGCTGAGGAGGAAGTTGGGACTCTGTCTCGGTGTCTAAGTGCTGCCTCAGGTACAGAGAGTGCTGAACGGACGCAGATGAGAGACATCTTGCAGCAGCATCTTGACAAGTCTAAAGCACTTAGAGTCTGCACACCACTGACTGGCGTGAGGTATGTTCAGGAGAACAGCCCGTGTGTGACTCCCGTCTCCACAGCTGCACACAGCCTGAGCCGTCTTCACACCATGCTGTCCGGCCTCAGGAATGCACCCAGTGAGAAGCTGGAGCGGATACTCAGGTCATGTTCCCGAGATCCAACTCAGGCTATCGCTGACAGATTGAAAGAAATGTACGAAATATATTCTCAGCATTTCCAGCCAGATGAGAATTTTAGTAATTGTGCTAAAGAAATTGCCAACAAACATTTTCGTTTTGCAGAAATGCTCTACTATAAAGTATTAGAGTCTGTTATTGAGCAAGAACAAAAAAGATTGGGAGACATGGATTTATCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCGTTTTGCAGAAATGCTCT
56.26
TACGCGCTCATCCAGATTCC
59.97
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGTTTTGCAGAAATGCTCT
56.26
GGAATACGCGCTCATCCAGA
59.97
153
PCR template sequence:
TGCCAACAAACATTTTCGTTTTGCAGAAATGCTCTACTATAAAGTATTAGAGTCTGTTATTGAGCAAGAACAAAAAAGATTGGGAGACATGGATTTATCTTAAGGCCGTTAATAAGGCATATGAAGAATACGTGTTAGCCGCTGGGAATCTGGATGAGCGCGTATTCCTTGGTGAGGATGCTGAGGAGGAAGTTGGGACT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-150-5p(1), mmu-miR-351-5p(1), mmu-miR-483-5p(1), mmu-miR-377-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATGGATTTATCTTAAGGCCGTTAAT
siRNA sets
ATTAACGGCCTTAAGATAA,TAACGGCCTTAAGATAAAT,AACGGCCTTAAGATAAATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRBL2_568_ORF_1
0.747
0.101000319
0.387370793
417
ORF sequence:
ATGAGAGACATCTTGCAGCAGCATCTTGACAAGTCTAAAGCACTTAGAGTCTGCACACCACTGACTGGCGTGAGGTATGTTCAGGAGAACAGCCCGTGTGTGACTCCCGTCTCCACAGCTGCACACAGCCTGAGCCGTCTTCACACCATGCTGTCCGGCCTCAGGAATGCACCCAGTGAGAAGCTGGAGCGGATACTCAGGTCATGTTCCCGAGATCCAACTCAGGCTATCGCTGACAGATTGAAAGAAATGTACGAAATATATTCTCAGCATTTCCAGCCAGATGAGAATTTTAGTAATTGTGCTAAAGAAATTGCCAACAAACATTTTCGTTTTGCAGAAATGCTCTACTATAAAGTATTAGAGTCTGTTATTGAGCAAGAACAAAAAAGATTGGGAGACATGGATTTATCTTAA
Peptide sequence:
MRDILQQHLDKSKALRVCTPLTGVRYVQENSPCVTPVSTAAHSLSRLHTMLSGLRNAPSEKLERILRSCSRDPTQAIADRLKEMYEIYSQHFQPDENFSNCAKEIANKHFRFAEMLYYKVLESVIEQEQKRLGDMDLS
IRESfinder result
IRESfinder score
0.488169801
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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