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mmu_circDop1b_673
Basic information of circular RNA
PanCircBase ID:
mmu_circDop1b_673
mm39_Chr. Position ID:
chr16|93589974|93600478|+
Gene name:
Dop1b
Transcript:
ENSMUST00000045004.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
27,28,29,30,31,32
Exon/intron offsets:
0,5819,6820,7014,8474,10375
Genomic length:
10504
Exon/intron sizes in nt:
145,80,110,147,62,129
Flanking exon/introns:
chr16:93579366-93589974|chr16:93600478-93603222
Splice length:
673
Other database IDs:
CIRCpedia: MMU_CIRCpedia_34609, circAtlas: mmu-Dopey2_0021
circAtlas: hsa-DOPEY2_0034, CIRCpedia: HSA_CIRCpedia_35381
Human Ortholog IDs:
Mature spliced Sequence:
GAAATCACTCAGAGAATCCTGGAAGCTGTAGGTACCATCGCTGGCTCCTCCTTGGAACAAACAAGCTGGCTCAGCAGAAATCTGGAGGTGAAAGCCCAACCTCAGGTCTCTCTGGAAGAGTCAGATGCCGAGGACGACGTGCACAGTGCTGCTGAAGCCTCCACCATGGTATCTGCTTCTGCCCCCTCCGTTTACAGTGTGCAAGCGCTCTCTCTCTTGGCAGAGGTTCTGGCTTCTCTCCTGGACATGGTTTACCGCAGCGACGAGAAAGAGAAAGCTGTACCACTAATCTCCCGCTTGCTATACTACGTGTTTCCTTACCTGCGCAATCACAGTGCGTACAATGCTCCCAGCTTCCGAGCCGGCGCCCAGCTGCTGAGCTCCCTGAGTGGCTATGCCTACACCAAGCGGGCGTGGAAGAAGGAAGTGCTGGAGCTGTTCTTGGACCCCGCTTTCTTTCAGATGGATACGTCTTGCGTCCACTGGAAGTCCGTCATTGACCATCTCCTGACTCACGAGAAAACCATGTTTAAGGATTTAATGAACATGCAGAGCAGTTCCTTAAAACTCTTCTCCAGCTTTGAGCAGAAGGCCATGCTGCTGAAGCGCCAGGCTTTTGCCGTCTTCAGTGGCGAGCTTGACCAGTACCACCTCTACCTTCCCCTGATACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTTTGAGCAGAAGGCCAT
59.96
GAGCCAGCGATGGTACCTAC
59.97
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTTTGCCGTCTTCAGTGG
60.04
GTTGGGCTTTCACCTCCAGA
59.89
161
PCR template sequence:
TCCAGCTTTGAGCAGAAGGCCATGCTGCTGAAGCGCCAGGCTTTTGCCGTCTTCAGTGGCGAGCTTGACCAGTACCACCTCTACCTTCCCCTGATACAAGGAAATCACTCAGAGAATCCTGGAAGCTGTAGGTACCATCGCTGGCTCCTCCTTGGAACAAACAAGCTGGCTCAGCAGAAATCTGGAGGTGAAAGCCCAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-miR-16-5p(1), mmu-miR-103-3p(1), mmu-let-7e-5p(1), mmu-let-7c-5p(1), mmu-miR-322-5p(1), mmu-miR-320-3p(1), mmu-miR-185-5p(1), mmu-miR-107-3p(1), mmu-miR-98-5p(1), mmu-miR-5101(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
CCCCTGATACAAGGAAATCACTCAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDOP1B_673_ORF_1
0.9495
0.264084009
0.913354461
663
ORF sequence:
ATGGTATCTGCTTCTGCCCCCTCCGTTTACAGTGTGCAAGCGCTCTCTCTCTTGGCAGAGGTTCTGGCTTCTCTCCTGGACATGGTTTACCGCAGCGACGAGAAAGAGAAAGCTGTACCACTAATCTCCCGCTTGCTATACTACGTGTTTCCTTACCTGCGCAATCACAGTGCGTACAATGCTCCCAGCTTCCGAGCCGGCGCCCAGCTGCTGAGCTCCCTGAGTGGCTATGCCTACACCAAGCGGGCGTGGAAGAAGGAAGTGCTGGAGCTGTTCTTGGACCCCGCTTTCTTTCAGATGGATACGTCTTGCGTCCACTGGAAGTCCGTCATTGACCATCTCCTGACTCACGAGAAAACCATGTTTAAGGATTTAATGAACATGCAGAGCAGTTCCTTAAAACTCTTCTCCAGCTTTGAGCAGAAGGCCATGCTGCTGAAGCGCCAGGCTTTTGCCGTCTTCAGTGGCGAGCTTGACCAGTACCACCTCTACCTTCCCCTGATACAAGGAAATCACTCAGAGAATCCTGGAAGCTGTAGGTACCATCGCTGGCTCCTCCTTGGAACAAACAAGCTGGCTCAGCAGAAATCTGGAGGTGAAAGCCCAACCTCAGGTCTCTCTGGAAGAGTCAGATGCCGAGGACGACGTGCACAGTGCTGCTGA
Peptide sequence:
MVSASAPSVYSVQALSLLAEVLASLLDMVYRSDEKEKAVPLISRLLYYVFPYLRNHSAYNAPSFRAGAQLLSSLSGYAYTKRAWKKEVLELFLDPAFFQMDTSCVHWKSVIDHLLTHEKTMFKDLMNMQSSSLKLFSSFEQKAMLLKRQAFAVFSGELDQYHLYLPLIQGNHSENPGSCRYHRWLLLGTNKLAQQKSGGESPTSGLSGRVRCRGRRAQCC
IRESfinder result
IRESfinder score
0.578999172
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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