top of page
mmu_ciDepp1_846
Basic information of circular RNA
PanCircBase ID:
mmu_ciDepp1_846
mm39_Chr. Position ID:
chr6|116627806|116628652|+
Gene name:
Depp1
Transcript:
ENSMUST00000067354.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
1
Exon/intron offsets:
0
Genomic length:
846
Exon/intron sizes in nt:
846
Flanking exon/introns:
chr6:116627806-116628653
Splice length:
846
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGAAGAGCAGCCACCCTTTGGCTTGACACTTTTAAAACACGGGGCTAGTTTATCTCTGAGAGCATCTCTCATCCCGAGCTTTCACGGCCTGACTACTGGATAGAGAGCAGGGGGGTGGGTACCACCGACCACTATGATAATAAGGTGTTTATACAAGGCCTTTGTGTTTACAGGAGAGCTGTGATGTCAAAGCTATGTCTCCGTGAATTTCCCCATATATCCCTGCCAGTGGGATGTTTATAACCCTATTTTTCAGACAAGTAATTAGAGGTTTAGAGAGGTGACATTGCCAGTCTCTAAGTCATTAAGTGGCAGAGACGAGTTTAAAACCTAGGTGTTCTCTGACCCCACATTAATACCCCCCCCCCCGTTTTCTTACCTGTTCGTTCTTCATTTTAAAATTTTTAATTAATTTATTTTATTTTATATGCATGGATATTTTGCCTACACTAATGTATGTGTGCTACACACATGCCAGTCAGACCCCTGGAACTTGATTTATAGATGGCTAGAGCCACTATGTGTGTGCTAAGAACTGAACTCAGGCTCTCTGCAAGAATAAGTACCCTTACCACTGAGCCCCGACTATCTGGCTATTCTTAAACAACACTAATGATGAAGCCTTAGTGAGCTGGGTACTTTGGTGGTAGCTGGAAGGATGAGTGCGGGTGGGGGCAGGGGGGTGAGCCTTGGTCTCAGATCTGCAGGTTTCTTATTGTTTTCTGGGTACCCGAGCCCCGTGTAGCATCTCCGATGAGGGAGAGGAAGTAGGAGGGTGTCAGGGTGGCATGGCGGGCTCGCCACTGGTTTCCTCTTGGCTAACAGGTTGCTTTTGCTTTATTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCGCCACTGGTTTCCTCTT
59.96
GTAGTCAGGCCGTGAAAGCT
60.04
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCGCCACTGGTTTCCTCTT
59.96
AGTAGTCAGGCCGTGAAAGC
60.04
147
PCR template sequence:
AGCATCTCCGATGAGGGAGAGGAAGTAGGAGGGTGTCAGGGTGGCATGGCGGGCTCGCCACTGGTTTCCTCTTGGCTAACAGGTTGCTTTTGCTTTATTAGTAAGAAGAGCAGCCACCCTTTGGCTTGACACTTTTAAAACACGGGGCTAGTTTATCTCTGAGAGCATCTCTCATCCCGAGCTTTCACGGCCTGACTACT
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-miR-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-30d-5p(1), mmu-miR-30b-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-673-5p(1), mmu-miR-484(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTTGCTTTATTAGTAAGAAGAGCAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.78778087
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page