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mmu_circKat5_325
Basic information of circular RNA
PanCircBase ID:
mmu_circKat5_325
mm39_Chr. Position ID:
chr19|5655399|5657668|-
Gene name:
Kat5
Transcript:
ENSMUST00000113641.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
11,10,9
Exon/intron offsets:
0,171,2179
Genomic length:
2269
Exon/intron sizes in nt:
94,141,90
Flanking exon/introns:
chr19:5654017-5655399|chr19:5657668-5657743
Splice length:
325
Other database IDs:
circAtlas: mmu-Kat5_0001
Human Ortholog IDs:
Mature spliced Sequence:
ACCAAATGTGATCTTCGGCACCCTCCAGGCAATGAAATTTACCGCAAGGGCACCATCTCCTTTTTTGAGATTGATGGACGGAAAAACAAGAGTTACTCACAAAACCTGTGTCTTCTGGCCAAGTGTTTCCTGGACCACAAAACACTGTACTATGACACTGACCCCTTCCTCTTCTACGTAATGACGGAGTATGACTGCAAAGGTTTCCACATCGTGGGCTACTTCTCCAAGGAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGATTACAATGTGGCCTGCA
57.49
AAAGGAGATGGTGCCCTTGC
60.61
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGATTACAATGTGGCCTGCA
59.25
AAAGGAGATGGTGCCCTTGC
60.61
142
PCR template sequence:
TCCAAGGAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCAACCAAATGTGATCTTCGGCACCCTCCAGGCAATGAAATTTACCGCAAGGGCACCATCTCCTTTTTTGAGATTGATGGACGGAAAAACAAGAGTTACTCAC
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-709(1)
siRNAs for circular RNA silencing
Junction sequence
CTTATTGAGTTCAACCAAATGTGATC
siRNA sets
ATCACATTTGGTTGAACTC, ATTTGGTTGAACTCAATAA, TCACATTTGGTTGAACTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKAT5_325_ORF_1
0.7452
0.358339256
0.525935734
348
ORF sequence:
ATGGCAAGCTGCTTATTGAGTTCAACCAAATGTGATCTTCGGCACCCTCCAGGCAATGAAATTTACCGCAAGGGCACCATCTCCTTTTTTGAGATTGATGGACGGAAAAACAAGAGTTACTCACAAAACCTGTGTCTTCTGGCCAAGTGTTTCCTGGACCACAAAACACTGTACTATGACACTGACCCCTTCCTCTTCTACGTAATGACGGAGTATGACTGCAAAGGTTTCCACATCGTGGGCTACTTCTCCAAGGAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTC
Peptide sequence:
MASCLLSSTKCDLRHPPGNEIYRKGTISFFEIDGRKNKSYSQNLCLLAKCFLDHKTLYYDTDPFLFYVMTEYDCKGFHIVGYFSKEKESTEDYNVACILTLPPYQRRGYGKLLIEF
IRESfinder result
IRESfinder score
0.379605459
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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