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mmu_circDdx46_585
Basic information of circular RNA
PanCircBase ID:
mmu_circDdx46_585
mm39_Chr. Position ID:
chr13|55800725|55802943|+
Gene name:
Ddx46
Transcript:
ENSMUST00000099479.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,9,10,11
Exon/intron offsets:
0,689,1091,2096
Genomic length:
2218
Exon/intron sizes in nt:
1,66,12,11,76,122
Flanking exon/introns:
chr13:55799970-55800725|chr13:55802943-55806832
Splice length:
585
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TATTCCTCAGAGGAGGAGGAAGTTGACCTTCAAACGGCCCTCACAGGCTACCAGACAAAACAGAGAAAACTTCTAGAGCCAGTTGATCATGGAAAAATTGAATATGAGCCATTCAGAAAAAACTTTTATGTTGAAGTTCCAGAATTAGCAAAAATGTCTCAAGAAGAGGTGAATGTGTTTCGATTGGAAATGGAGGGCATTACAGTTAAAGGAAAAGGTTGCCCGAAACCAATTAAATCATGGGTCCAGTGTGGAATTTCCATGAAGATACTAAATTCCCTCAAAAAGCATGGCTATGAAAAGCCAACACCAATCCAAACTCAAGCGATTCCTGCTATAATGTCTGGACGAGATTTGATTGGCATTGCCAAGACAGGAAGTGGAAAAACCATTGCTTTTCTTTTGCCCATGTTTAGACACATCATGGATCAGAGGTCATTAGAAGAAGGAGAGGGACCAATAGCTGTCATCATGACTCCAACTCGAGAGCTGGCTTTACAAATCACTAAAGAATGTAAGAAGTTTTCGAAGACCTTGGGACTGAGAGTGGTCTGTGTGTATGGAGGGACAGGAATCAGCGAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTTGGGACTGAGAGTGGT
60.1
TTCCATGATCAACTGGCTCT
56.52
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGACTGAGAGTGGTCTGT
59.81
TTCCATGATCAACTGGCTCT
56.52
144
PCR template sequence:
AGAGCTGGCTTTACAAATCACTAAAGAATGTAAGAAGTTTTCGAAGACCTTGGGACTGAGAGTGGTCTGTGTGTATGGAGGGACAGGAATCAGCGAGCAGTATTCCTCAGAGGAGGAGGAAGTTGACCTTCAAACGGCCCTCACAGGCTACCAGACAAAACAGAGAAAACTTCTAGAGCCAGTTGATCATGGAAAAATTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(1), mmu-miR-135a-5p(1), mmu-miR-181b-5p(1), mmu-miR-149-5p(1), mmu-miR-433-3p(1), mmu-miR-182-5p(1), mmu-miR-129-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AATCAGCGAGCAGTATTCCTCAGAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDDX46_585_ORF_1
0.9352
0.119207949
0.986547817
1017
ORF sequence:
ATGTCTCAAGAAGAGGTGAATGTGTTTCGATTGGAAATGGAGGGCATTACAGTTAAAGGAAAAGGTTGCCCGAAACCAATTAAATCATGGGTCCAGTGTGGAATTTCCATGAAGATACTAAATTCCCTCAAAAAGCATGGCTATGAAAAGCCAACACCAATCCAAACTCAAGCGATTCCTGCTATAATGTCTGGACGAGATTTGATTGGCATTGCCAAGACAGGAAGTGGAAAAACCATTGCTTTTCTTTTGCCCATGTTTAGACACATCATGGATCAGAGGTCATTAGAAGAAGGAGAGGGACCAATAGCTGTCATCATGACTCCAACTCGAGAGCTGGCTTTACAAATCACTAAAGAATGTAAGAAGTTTTCGAAGACCTTGGGACTGAGAGTGGTCTGTGTGTATGGAGGGACAGGAATCAGCGAGCAGTATTCCTCAGAGGAGGAGGAAGTTGACCTTCAAACGGCCCTCACAGGCTACCAGACAAAACAGAGAAAACTTCTAGAGCCAGTTGATCATGGAAAAATTGAATATGAGCCATTCAGAAAAAACTTTTATGTTGAAGTTCCAGAATTAGCAAAAATGTCTCAAGAAGAGGTGAATGTGTTTCGATTGGAAATGGAGGGCATTACAGTTAAAGGAAAAGGTTGCCCGAAACCAATTAAATCATGGGTCCAGTGTGGAATTTCCATGAAGATACTAAATTCCCTCAAAAAGCATGGCTATGAAAAGCCAACACCAATCCAAACTCAAGCGATTCCTGCTATAATGTCTGGACGAGATTTGATTGGCATTGCCAAGACAGGAAGTGGAAAAACCATTGCTTTTCTTTTGCCCATGTTTAGACACATCATGGATCAGAGGTCATTAGAAGAAGGAGAGGGACCAATAGCTGTCATCATGACTCCAACTCGAGAGCTGGCTTTACAAATCACTAAAGAATGTAAGAAGTTTTCGAAGACCTTGGGACTGAGAGTGGTCTGTGTGTATGGAGGGACAGGAATCAGCGAGCAG
Peptide sequence:
MSQEEVNVFRLEMEGITVKGKGCPKPIKSWVQCGISMKILNSLKKHGYEKPTPIQTQAIPAIMSGRDLIGIAKTGSGKTIAFLLPMFRHIMDQRSLEEGEGPIAVIMTPTRELALQITKECKKFSKTLGLRVVCVYGGTGISEQYSSEEEEVDLQTALTGYQTKQRKLLEPVDHGKIEYEPFRKNFYVEVPELAKMSQEEVNVFRLEMEGITVKGKGCPKPIKSWVQCGISMKILNSLKKHGYEKPTPIQTQAIPAIMSGRDLIGIAKTGSGKTIAFLLPMFRHIMDQRSLEEGEGPIAVIMTPTRELALQITKECKKFSKTLGLRVVCVYGGTGISEQ
IRESfinder result
IRESfinder score
0.571557429
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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