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mmu_circTut4_1150
Basic information of circular RNA
PanCircBase ID:
mmu_circTut4_1150
mm39_Chr. Position ID:
chr4|108336069|108348661|+
Gene name:
Tut4
Transcript:
ENSMUST00000043368.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,7581,12475
Genomic length:
12592
Exon/intron sizes in nt:
869,164,117
Flanking exon/introns:
chr4:108317397-108336069|chr4:108348661-108352346
Splice length:
1150
Other database IDs:
circBase: mmu_circ_0011031, CIRCpedia: MMU_CIRCpedia_2350, circAtlas: mmu-Zcchc11_0008
Human Ortholog IDs:
Mature spliced Sequence:
TTTGCTTGCCTAAAGTAGATTTGGAGCAGTTCATACACCTGAGCCCTGCTATTCTACAGCGTCAGATTGGAAAGAGTCAGATTTTCAAATAATGGAAGAGCCCAAGACTTCTAAAAACGAAAATCATGAACCAAAGAAGAATATTATTTGTGAAGAAAGCAAAGCAGTTAAAATTATATCTAATCAAACCTTGAAGCCTAGAAATGATAAGTCAGAAATTGGGACCAGCTCTCTGAATAGAAATAGTAGTAAAAAAACCAAGCAAAATGATATTTGTATAGAAAAAACAGAAGCTAAATCATGTAAAGTAAACGCTGCCAGTGTTCCAGGCCCTAAAGATTTGGGGTTAGTACATCGAGATCAAAGTCATTGCAAAATGAAAAAGTTACCAAATTCACCCATGAAAGCCCAGAAGGGATCTTCACAGACAAAATTAGAAAAGACACCTAGTTTACAGACAAAAGCAGAAAAAGTACCAAAGTCTCCAAATTTACCAGTAAAAGCAGAAAAAGCGCCCTGTACAACAGCAGAAGCAACAACAGAAAAAGCACTTAATTCACAGAGAAAAGAAGAAAACACACCCACTTCTCAGATGAAATTACAGAAGACACCCAGATCACCTTTAGAGCCAGAAAATGTGCCCAGTTTACTATTGAAAGAAAATGTGAAACAGACAGAATCACAACAGACTGGGAAGAAACTTACAAGCTCCTTTGTTTCTATGGATAAAAGGAAGAGTGAAGCTCTACAGGGAGAAAAGTCAGCTCTGGAAAACTCATCACTATCTCAGAAGCAGCAGACTCAGACAGATAATATTGCTGATTCTGATGACAGTGCTTCAGGGATTGAAGATACAGCAGATGATTTGAGTAAAATGAAGAGTGAGGAATCTAACAAAGAAAATTCTTCTGAGATGGACTATTTAGAAAATGCCACTGTAATAGATGAATCTGCTTTGACACCTGAGCAGAGGCTAGGCTTGAAACAAGCAGAAGAACGTCTAGAAAGAGATCACATCTTCCGACTTGAAAAACGGTCACCAGAATATACCAATTGCCGCTATCTATGCAAACTTTGCTTAATTCACATTGAAAACATCCAAGGAGCACATAAACATATAAAAGAAAAACGACATAAGAAAAATATTTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCGCTATCTATGCAAACT
57.38
ACGCTGTAGAATAGCAGGGC
59.89
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCGCTATCTATGCAAACT
57.38
GCAGGGCTCAGGTGTATGAA
59.75
145
PCR template sequence:
CAATTGCCGCTATCTATGCAAACTTTGCTTAATTCACATTGAAAACATCCAAGGAGCACATAAACATATAAAAGAAAAACGACATAAGAAAAATATTTTGTTTGCTTGCCTAAAGTAGATTTGGAGCAGTTCATACACCTGAGCCCTGCTATTCTACAGCGTCAGATTGGAAAGAGTCAGATTTTCAAATAATGGAAGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-24-3p(1), mmu-miR-1198-5p(1), mmu-miR-335-3p(1), mmu-miR-670-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GAAAAATATTTTGTTTGCTTGCCTAA
siRNA sets
TTAGGCAAGCAAACAAAAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTUT4_1150_ORF_1
0.9988
0.017753645
0.987932879
1077
ORF sequence:
ATGGAAGAGCCCAAGACTTCTAAAAACGAAAATCATGAACCAAAGAAGAATATTATTTGTGAAGAAAGCAAAGCAGTTAAAATTATATCTAATCAAACCTTGAAGCCTAGAAATGATAAGTCAGAAATTGGGACCAGCTCTCTGAATAGAAATAGTAGTAAAAAAACCAAGCAAAATGATATTTGTATAGAAAAAACAGAAGCTAAATCATGTAAAGTAAACGCTGCCAGTGTTCCAGGCCCTAAAGATTTGGGGTTAGTACATCGAGATCAAAGTCATTGCAAAATGAAAAAGTTACCAAATTCACCCATGAAAGCCCAGAAGGGATCTTCACAGACAAAATTAGAAAAGACACCTAGTTTACAGACAAAAGCAGAAAAAGTACCAAAGTCTCCAAATTTACCAGTAAAAGCAGAAAAAGCGCCCTGTACAACAGCAGAAGCAACAACAGAAAAAGCACTTAATTCACAGAGAAAAGAAGAAAACACACCCACTTCTCAGATGAAATTACAGAAGACACCCAGATCACCTTTAGAGCCAGAAAATGTGCCCAGTTTACTATTGAAAGAAAATGTGAAACAGACAGAATCACAACAGACTGGGAAGAAACTTACAAGCTCCTTTGTTTCTATGGATAAAAGGAAGAGTGAAGCTCTACAGGGAGAAAAGTCAGCTCTGGAAAACTCATCACTATCTCAGAAGCAGCAGACTCAGACAGATAATATTGCTGATTCTGATGACAGTGCTTCAGGGATTGAAGATACAGCAGATGATTTGAGTAAAATGAAGAGTGAGGAATCTAACAAAGAAAATTCTTCTGAGATGGACTATTTAGAAAATGCCACTGTAATAGATGAATCTGCTTTGACACCTGAGCAGAGGCTAGGCTTGAAACAAGCAGAAGAACGTCTAGAAAGAGATCACATCTTCCGACTTGAAAAACGGTCACCAGAATATACCAATTGCCGCTATCTATGCAAACTTTGCTTAATTCACATTGAAAACATCCAAGGAGCACATAAACATATAAAAGAAAAACGACATAAGAAAAATATTTTGTTTGCTTGCCTAAAGTAG
Peptide sequence:
MEEPKTSKNENHEPKKNIICEESKAVKIISNQTLKPRNDKSEIGTSSLNRNSSKKTKQNDICIEKTEAKSCKVNAASVPGPKDLGLVHRDQSHCKMKKLPNSPMKAQKGSSQTKLEKTPSLQTKAEKVPKSPNLPVKAEKAPCTTAEATTEKALNSQRKEENTPTSQMKLQKTPRSPLEPENVPSLLLKENVKQTESQQTGKKLTSSFVSMDKRKSEALQGEKSALENSSLSQKQQTQTDNIADSDDSASGIEDTADDLSKMKSEESNKENSSEMDYLENATVIDESALTPEQRLGLKQAEERLERDHIFRLEKRSPEYTNCRYLCKLCLIHIENIQGAHKHIKEKRHKKNILFACLK
IRESfinder result
IRESfinder score
0.699539665
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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