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mmu_circTut4_869_1
Basic information of circular RNA
PanCircBase ID:
mmu_circTut4_869_1
mm39_Chr. Position ID:
chr4|108336069|108336938|+
Gene name:
Tut4
Transcript:
ENSMUST00000043368.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
869
Exon/intron sizes in nt:
869
Flanking exon/introns:
chr4:108317397-108336069|chr4:108336938-108343650
Splice length:
869
Other database IDs:
circBase: mmu_circ_0001239, CIRCpedia: MMU_CIRCpedia_2348, circAtlas: mmu-Zcchc11_0001
Human Ortholog IDs:
Mature spliced Sequence:
TTTGCTTGCCTAAAGTAGATTTGGAGCAGTTCATACACCTGAGCCCTGCTATTCTACAGCGTCAGATTGGAAAGAGTCAGATTTTCAAATAATGGAAGAGCCCAAGACTTCTAAAAACGAAAATCATGAACCAAAGAAGAATATTATTTGTGAAGAAAGCAAAGCAGTTAAAATTATATCTAATCAAACCTTGAAGCCTAGAAATGATAAGTCAGAAATTGGGACCAGCTCTCTGAATAGAAATAGTAGTAAAAAAACCAAGCAAAATGATATTTGTATAGAAAAAACAGAAGCTAAATCATGTAAAGTAAACGCTGCCAGTGTTCCAGGCCCTAAAGATTTGGGGTTAGTACATCGAGATCAAAGTCATTGCAAAATGAAAAAGTTACCAAATTCACCCATGAAAGCCCAGAAGGGATCTTCACAGACAAAATTAGAAAAGACACCTAGTTTACAGACAAAAGCAGAAAAAGTACCAAAGTCTCCAAATTTACCAGTAAAAGCAGAAAAAGCGCCCTGTACAACAGCAGAAGCAACAACAGAAAAAGCACTTAATTCACAGAGAAAAGAAGAAAACACACCCACTTCTCAGATGAAATTACAGAAGACACCCAGATCACCTTTAGAGCCAGAAAATGTGCCCAGTTTACTATTGAAAGAAAATGTGAAACAGACAGAATCACAACAGACTGGGAAGAAACTTACAAGCTCCTTTGTTTCTATGGATAAAAGGAAGAGTGAAGCTCTACAGGGAGAAAAGTCAGCTCTGGAAAACTCATCACTATCTCAGAAGCAGCAGACTCAGACAGATAATATTGCTGATTCTGATGACAGTGCTTCAGGGATTGAAGATACAGCAGATGATTTGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGAAGCAGCAGACTCAGACA
60
ACGCTGTAGAATAGCAGGGC
59.89
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGCAGCAGACTCAGACAGA
59.73
ACGCTGTAGAATAGCAGGGC
59.89
142
PCR template sequence:
GAAAACTCATCACTATCTCAGAAGCAGCAGACTCAGACAGATAATATTGCTGATTCTGATGACAGTGCTTCAGGGATTGAAGATACAGCAGATGATTTGATTTGCTTGCCTAAAGTAGATTTGGAGCAGTTCATACACCTGAGCCCTGCTATTCTACAGCGTCAGATTGGAAAGAGTCAGATTTTCAAATAATGGAAGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-24-3p(1), mmu-miR-335-3p(1), mmu-miR-670-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GCAGATGATTTGATTTGCTTGCCTAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTUT4_869_1_ORF_1
1.0238
0.004227527
0.948615766
870
ORF sequence:
ATGGAAGAGCCCAAGACTTCTAAAAACGAAAATCATGAACCAAAGAAGAATATTATTTGTGAAGAAAGCAAAGCAGTTAAAATTATATCTAATCAAACCTTGAAGCCTAGAAATGATAAGTCAGAAATTGGGACCAGCTCTCTGAATAGAAATAGTAGTAAAAAAACCAAGCAAAATGATATTTGTATAGAAAAAACAGAAGCTAAATCATGTAAAGTAAACGCTGCCAGTGTTCCAGGCCCTAAAGATTTGGGGTTAGTACATCGAGATCAAAGTCATTGCAAAATGAAAAAGTTACCAAATTCACCCATGAAAGCCCAGAAGGGATCTTCACAGACAAAATTAGAAAAGACACCTAGTTTACAGACAAAAGCAGAAAAAGTACCAAAGTCTCCAAATTTACCAGTAAAAGCAGAAAAAGCGCCCTGTACAACAGCAGAAGCAACAACAGAAAAAGCACTTAATTCACAGAGAAAAGAAGAAAACACACCCACTTCTCAGATGAAATTACAGAAGACACCCAGATCACCTTTAGAGCCAGAAAATGTGCCCAGTTTACTATTGAAAGAAAATGTGAAACAGACAGAATCACAACAGACTGGGAAGAAACTTACAAGCTCCTTTGTTTCTATGGATAAAAGGAAGAGTGAAGCTCTACAGGGAGAAAAGTCAGCTCTGGAAAACTCATCACTATCTCAGAAGCAGCAGACTCAGACAGATAATATTGCTGATTCTGATGACAGTGCTTCAGGGATTGAAGATACAGCAGATGATTTGATTTGCTTGCCTAAAGTAGATTTGGAGCAGTTCATACACCTGAGCCCTGCTATTCTACAGCGTCAGATTGGAAAGAGTCAGATTTTCAAATAA
Peptide sequence:
MEEPKTSKNENHEPKKNIICEESKAVKIISNQTLKPRNDKSEIGTSSLNRNSSKKTKQNDICIEKTEAKSCKVNAASVPGPKDLGLVHRDQSHCKMKKLPNSPMKAQKGSSQTKLEKTPSLQTKAEKVPKSPNLPVKAEKAPCTTAEATTEKALNSQRKEENTPTSQMKLQKTPRSPLEPENVPSLLLKENVKQTESQQTGKKLTSSFVSMDKRKSEALQGEKSALENSSLSQKQQTQTDNIADSDDSASGIEDTADDLICLPKVDLEQFIHLSPAILQRQIGKSQIFK
IRESfinder result
IRESfinder score
0.700094334
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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