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mmu_circ5730480H06Rik_706
Basic information of circular RNA
PanCircBase ID:
mmu_circ5730480H06Rik_706
mm39_Chr. Position ID:
chr5|48531521|48539209|+
Gene name:
5730480H06Rik
Transcript:
ENSMUST00000030968.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
2,3,4,5,6,7,8
Exon/intron offsets:
0,204,1363,2895,5150,5944,7607
Genomic length:
7688
Exon/intron sizes in nt:
68,155,68,91,135,108,81
Flanking exon/introns:
chr5:48529837-48531521|chr5:48539209-48545444
Splice length:
706
Other database IDs:
circAtlas: mmu-Pacrgl_0001
Human Ortholog IDs:
Mature spliced Sequence:
GGGTGAAGGAGAAGCTATGCAGAGATCAGAGTGCTCTGGAGGTGTGCAGTTGAGAAACAGAGCGACAGGTAGTAATGATCAACGTACATCCTCAAGCACACAAATGAAACACAGGACTACGGTTCAGCGGAGCAAATCCTCCTCATTAACCAGTTCTCCAGAGGCTGCAAGAAGGGCTCGTCCTCGGCCAAGTGATAAGCTCAACCCTAAAACCATTAACCCTTTTGGTGAACAACCACGGGCCCCTACTGCATTCGCAGCTATTTACTCTCAGGGAGGCATTCCTTGCAGATTGGTACATGGCTCAGTAAAACACAGATTACAGTGGGAATGCCCGCCTGAAATTCTTCCATTTGACCCGCTTCTAATTACGTTAGCTGAGGGTCTGAGGGAGACCAAGCATCCTTATACTTTTGTGTCAAAGGAAGGCTTTAGGGAGTTGCTTCTGGTCAAGGGTGCTCCTGAAAAAGCTATCCCTTTGCTACCTCGACTGATCCCTGTGCTGAAGGCAGCTCTAGTTCATTCTGATGATGAAGTGTTTGAAAGAGGACTGAGCGCACTCGTGCAGCTGAGTGTGGTGGTTGGCCCGTCTCTGAATGGCCATCTGAAACTTCTGCTTACAAGTCTTTCGAAGAGGCTAATGGACAAAAAATTCAAAGAGCCCATCACCAGTGCTCTGCAAAAGCTGGAGCAGCACGGCGGAAAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACCAGTGCTCTGCAAAAGC
60.32
TGTGCTTGAGGATGTACGTTGA
59.96
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCATCACCAGTGCTCTGCAA
60.61
TGTGCTTGAGGATGTACGTTGA
59.96
144
PCR template sequence:
GAAACTTCTGCTTACAAGTCTTTCGAAGAGGCTAATGGACAAAAAATTCAAAGAGCCCATCACCAGTGCTCTGCAAAAGCTGGAGCAGCACGGCGGAAATGGGTGAAGGAGAAGCTATGCAGAGATCAGAGTGCTCTGGAGGTGTGCAGTTGAGAAACAGAGCGACAGGTAGTAATGATCAACGTACATCCTCAAGCACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-miR-7b-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-146a-5p(1), mmu-let-7d-5p(1), mmu-miR-218-5p(1), mmu-miR-666-5p(1), mmu-miR-98-5p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCACGGCGGAAATGGGTGAAGGAGAA
siRNA sets
TTCTCCTTCACCCATTTCC,TCCTTCACCCATTTCCGCC,TCTCCTTCACCCATTTCCG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC5730480H06RIK_706_ORF_1
0.9391
0.092982066
0.876489456
708
ORF sequence:
ATGGGTGAAGGAGAAGCTATGCAGAGATCAGAGTGCTCTGGAGGTGTGCAGTTGAGAAACAGAGCGACAGGTAGTAATGATCAACGTACATCCTCAAGCACACAAATGAAACACAGGACTACGGTTCAGCGGAGCAAATCCTCCTCATTAACCAGTTCTCCAGAGGCTGCAAGAAGGGCTCGTCCTCGGCCAAGTGATAAGCTCAACCCTAAAACCATTAACCCTTTTGGTGAACAACCACGGGCCCCTACTGCATTCGCAGCTATTTACTCTCAGGGAGGCATTCCTTGCAGATTGGTACATGGCTCAGTAAAACACAGATTACAGTGGGAATGCCCGCCTGAAATTCTTCCATTTGACCCGCTTCTAATTACGTTAGCTGAGGGTCTGAGGGAGACCAAGCATCCTTATACTTTTGTGTCAAAGGAAGGCTTTAGGGAGTTGCTTCTGGTCAAGGGTGCTCCTGAAAAAGCTATCCCTTTGCTACCTCGACTGATCCCTGTGCTGAAGGCAGCTCTAGTTCATTCTGATGATGAAGTGTTTGAAAGAGGACTGAGCGCACTCGTGCAGCTGAGTGTGGTGGTTGGCCCGTCTCTGAATGGCCATCTGAAACTTCTGCTTACAAGTCTTTCGAAGAGGCTAATGGACAAAAAATTCAAAGAGCCCATCACCAGTGCTCTGCAAAAGCTGGAGCAGCACGGCGGAAAT
Peptide sequence:
MGEGEAMQRSECSGGVQLRNRATGSNDQRTSSSTQMKHRTTVQRSKSSSLTSSPEAARRARPRPSDKLNPKTINPFGEQPRAPTAFAAIYSQGGIPCRLVHGSVKHRLQWECPPEILPFDPLLITLAEGLRETKHPYTFVSKEGFRELLLVKGAPEKAIPLLPRLIPVLKAALVHSDDEVFERGLSALVQLSVVVGPSLNGHLKLLLTSLSKRLMDKKFKEPITSALQKLEQHGGN
IRESfinder result
IRESfinder score
0.479424314
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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