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mmu_circDbnl_970
Basic information of circular RNA
PanCircBase ID:
mmu_circDbnl_970
mm39_Chr. Position ID:
chr11|5741791|5748325|+
Gene name:
Dbnl
Transcript:
ENSMUST00000109845.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11
Exon/intron offsets:
0,1858,2445,3656,4954,5232,5495,5835,6224,6424
Genomic length:
6534
Exon/intron sizes in nt:
5,61,13,75,14,77,81,52,00,00,00,000
Flanking exon/introns:
chr11:5738642-5741791|chr11:5748325-5749233
Splice length:
970
Other database IDs:
circAtlas: mmu-Dbnl_0007
CIRCpedia: HSA_CIRCpedia_58104
Human Ortholog IDs:
Mature spliced Sequence:
GGCTCTTTTTACCTATGAAGGCAACAGCAATGACATCCGTGTGGCTGGCACAGGAGAGGGAGGCCTGGAGGAGCTGGTGGAAGAGCTCAACAGCGGGAAGGTGATGTACGCCTTCTGCAGGGTGAAGGACCCCAACTCCGGCCTGCCCAAGTTTGTCCTCATCAACTGGACAGGAGAGGGTGTGAATGATGTGCGGAAAGGAGCATGTGCCAACCACGTCAGCACCATGGCCAACTTCCTGAAGGGTGCCCACGTGACCATCAATGCCCGGGCCGAGGAGGATGTGGAGCCTGAGTGCATCATGGAGAAGGTTGCCAAGGCCTCTGGGGCCAACTACAGCTTCCATAAGGAAAGCACCTCCTTCCAGGATGTAGGGCCGCAGGCCCCAGTGGGCTCTGTGTACCAGAAGACCAATGCCATATCTGAGATCAAGAGAGTCGGCAAGGATAACTTCTGGGCCAAAGCTGAGAAGGAAGAAGAGAACCGCCGCCTGGAGGAGAAGCGGCGTGCCGAAGAGGAGCGGCAGCGGTTGGAGGAGGAGCGACGAGAGCGGGAGCTGCAGGAGGCTGCCCGACGTGAGCAGCGCTACCAGGAACAGCACAGATCAGCTGGAGCCCCGAGGACAGGTGAGCCAGAGCAGGAAGCCGTTTCAAGGACCAGACAGGAGTGGGAGTCTGCTGGGCAGCAGGCCCCACACCCACGAGAGATTTTCAAGCAGAAGGAAAGGGCAATGTCCACCACCTCTGTCACCAGCTCGCAGCCGGGCAAGCTGAGGAGCCCCTTCCTGCAGAAGCAACTCACTCAACCAGAAACCTCCTACGGCCGAGAGCCCACAGCTCCTGTCTCCCGGCCTGCAGCAGGTGTCTGTGAGGAGCCAGCGCCTAGCACTCTGTCTTCTGCCCAGACAGAAGAAGAACCTACATATGAAGTACCCCCAGAGCAGGACACCCTCTATGAGGAACCACCACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCACTCTGTCTTCTGCCCAG
60.67
TGTTGAGCTCTTCCACCAGC
60.25
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCACTCTGTCTTCTGCCCAG
60.67
GCTGTTGAGCTCTTCCACCA
60.25
180
PCR template sequence:
GGAGCCAGCGCCTAGCACTCTGTCTTCTGCCCAGACAGAAGAAGAACCTACATATGAAGTACCCCCAGAGCAGGACACCCTCTATGAGGAACCACCACTGGGCTCTTTTTACCTATGAAGGCAACAGCAATGACATCCGTGTGGCTGGCACAGGAGAGGGAGGCCTGGAGGAGCTGGTGGAAGAGCTCAACAGCGGGAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-149-5p(2), mmu-miR-207(2), mmu-miR-96-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-484(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
GGAACCACCACTGGGCTCTTTTTACC
siRNA sets
TAAAAAGAGCCCAGTGGTG, GTAAAAAGAGCCCAGTGGT, GGTAAAAAGAGCCCAGTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDBNL_970_ORF_1
1.0522
0.513493516
0.997777081
1017
ORF sequence:
ATGAAGTACCCCCAGAGCAGGACACCCTCTATGAGGAACCACCACTGGGCTCTTTTTACCTATGAAGGCAACAGCAATGACATCCGTGTGGCTGGCACAGGAGAGGGAGGCCTGGAGGAGCTGGTGGAAGAGCTCAACAGCGGGAAGGTGATGTACGCCTTCTGCAGGGTGAAGGACCCCAACTCCGGCCTGCCCAAGTTTGTCCTCATCAACTGGACAGGAGAGGGTGTGAATGATGTGCGGAAAGGAGCATGTGCCAACCACGTCAGCACCATGGCCAACTTCCTGAAGGGTGCCCACGTGACCATCAATGCCCGGGCCGAGGAGGATGTGGAGCCTGAGTGCATCATGGAGAAGGTTGCCAAGGCCTCTGGGGCCAACTACAGCTTCCATAAGGAAAGCACCTCCTTCCAGGATGTAGGGCCGCAGGCCCCAGTGGGCTCTGTGTACCAGAAGACCAATGCCATATCTGAGATCAAGAGAGTCGGCAAGGATAACTTCTGGGCCAAAGCTGAGAAGGAAGAAGAGAACCGCCGCCTGGAGGAGAAGCGGCGTGCCGAAGAGGAGCGGCAGCGGTTGGAGGAGGAGCGACGAGAGCGGGAGCTGCAGGAGGCTGCCCGACGTGAGCAGCGCTACCAGGAACAGCACAGATCAGCTGGAGCCCCGAGGACAGGTGAGCCAGAGCAGGAAGCCGTTTCAAGGACCAGACAGGAGTGGGAGTCTGCTGGGCAGCAGGCCCCACACCCACGAGAGATTTTCAAGCAGAAGGAAAGGGCAATGTCCACCACCTCTGTCACCAGCTCGCAGCCGGGCAAGCTGAGGAGCCCCTTCCTGCAGAAGCAACTCACTCAACCAGAAACCTCCTACGGCCGAGAGCCCACAGCTCCTGTCTCCCGGCCTGCAGCAGGTGTCTGTGAGGAGCCAGCGCCTAGCACTCTGTCTTCTGCCCAGACAGAAGAAGAACCTACATATGAAGTACCCCCAGAGCAGGACACCCTCTATGAGGAACCACCACTG
Peptide sequence:
MKYPQSRTPSMRNHHWALFTYEGNSNDIRVAGTGEGGLEELVEELNSGKVMYAFCRVKDPNSGLPKFVLINWTGEGVNDVRKGACANHVSTMANFLKGAHVTINARAEEDVEPECIMEKVAKASGANYSFHKESTSFQDVGPQAPVGSVYQKTNAISEIKRVGKDNFWAKAEKEEENRRLEEKRRAEEERQRLEEERRERELQEAARREQRYQEQHRSAGAPRTGEPEQEAVSRTRQEWESAGQQAPHPREIFKQKERAMSTTSVTSSQPGKLRSPFLQKQLTQPETSYGREPTAPVSRPAAGVCEEPAPSTLSSAQTEEEPTYEVPPEQDTLYEEPPL
IRESfinder result
IRESfinder score
0.228402898
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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