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mmu_circDop1b_301
Basic information of circular RNA
PanCircBase ID:
mmu_circDop1b_301
mm39_Chr. Position ID:
chr16|93568633|93570997|+
Gene name:
Dop1b
Transcript:
ENSMUST00000045004.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
20,21
Exon/intron offsets:
0,2175
Genomic length:
2364
Exon/intron sizes in nt:
1,12,189
Flanking exon/introns:
chr16:93567914-93568633|chr16:93570997-93573774
Splice length:
301
Other database IDs:
circBase: hsa_circ_0001187, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_35373
Human Ortholog IDs:
Mature spliced Sequence:
TACAACCTCAAAGAAGGAAAACATTTCTCCTGACTACCCGCTCACTCTTCTGGAAGGTCTTACGACCATTAGCCATTTTTGTCTTTTGGAACAGCCTACCCAACATAAAAAGACTGCTGCCGTAAGCGATCCCATCAACCTGAGAAATGCCAAGAACGCCATTTTGGAAGAGCTACCTCGAATAGTGAACACCATGGCCCTTATCTGGAATGTTCTCAGAAAGGAGGAAACTCAGAAGAGACCAGTGGATCTCCTGGGAGCCACCAAAGGGTCATCCTCTGTTTACTTTAAAACCACCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCTCCTGGGAGCCACCAAA
60.85
GGTAGGCTGTTCCAAAAGACA
58.14
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCTGGGAGCCACCAAAG
60
GGTAGGCTGTTCCAAAAGACA
58.14
151
PCR template sequence:
TATCTGGAATGTTCTCAGAAAGGAGGAAACTCAGAAGAGACCAGTGGATCTCCTGGGAGCCACCAAAGGGTCATCCTCTGTTTACTTTAAAACCACCAAGTACAACCTCAAAGAAGGAAAACATTTCTCCTGACTACCCGCTCACTCTTCTGGAAGGTCTTACGACCATTAGCCATTTTTGTCTTTTGGAACAGCCTACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TAAAACCACCAAGTACAACCTCAAAG
siRNA sets
TTTGAGGTTGTACTTGGTG, TTGAGGTTGTACTTGGTGG, CTTTGAGGTTGTACTTGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDOP1B_301_ORF_1
0.8922
0.108882079
0.421447333
393
ORF sequence:
ATGTTCTCAGAAAGGAGGAAACTCAGAAGAGACCAGTGGATCTCCTGGGAGCCACCAAAGGGTCATCCTCTGTTTACTTTAAAACCACCAAGTACAACCTCAAAGAAGGAAAACATTTCTCCTGACTACCCGCTCACTCTTCTGGAAGGTCTTACGACCATTAGCCATTTTTGTCTTTTGGAACAGCCTACCCAACATAAAAAGACTGCTGCCGTAAGCGATCCCATCAACCTGAGAAATGCCAAGAACGCCATTTTGGAAGAGCTACCTCGAATAGTGAACACCATGGCCCTTATCTGGAATGTTCTCAGAAAGGAGGAAACTCAGAAGAGACCAGTGGATCTCCTGGGAGCCACCAAAGGGTCATCCTCTGTTTACTTTAAAACCACCAAG
Peptide sequence:
MFSERRKLRRDQWISWEPPKGHPLFTLKPPSTTSKKENISPDYPLTLLEGLTTISHFCLLEQPTQHKKTAAVSDPINLRNAKNAILEELPRIVNTMALIWNVLRKEETQKRPVDLLGATKGSSSVYFKTTK
IRESfinder result
IRESfinder score
0.57093541
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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