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mmu_circKlhl12_577
Basic information of circular RNA
PanCircBase ID:
mmu_circKlhl12_577
mm39_Chr. Position ID:
chr1|134403525|134414906|+
Gene name:
Klhl12
Transcript:
ENSMUST00000112232.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,7,8,9
Exon/intron offsets:
0,7959,9930,11222
Genomic length:
11381
Exon/intron sizes in nt:
1,15,10,71,96,159
Flanking exon/introns:
chr1:134400281-134403525|chr1:134414906-134415381
Splice length:
577
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CCTTTCATCCGCTGTAGTTTACAATGCAGAGATCTAGTTGATGAAGCAAAGAAGTTTCACCTGAGGCCTGAACTTCGGAGTCAGATGCAAGGACCCAGAACAAGGGCCCGGCTAGGAGCCAATGAAGTGCTTCTGGTGGTTGGGGGCTTCGGAAGCCAGCAGTCTCCTATTGATGTGGTAGAGAAGTATGACCCCAAGACACAGGAGTGGAGCTTTTTACCAAGTATCACTCGCAAGAGACGGTATGTGGCCTCAGTTTCCTTACATGATCGGATCTATGTAATTGGTGGCTACGATGGCCGTTCCCGCCTCAGTTCGGTGGAATGTCTAGACTATACAGCAGACGAAGATGGAGTGTGGTACTCTGTGGCCCCTATGAATGTGCGGCGAGGCCTTGCTGGAGCCACCACTCTGGGAGATATGATTTACGTCTCTGGAGGCTTTGATGGAAGTAGGCGTCATACAAGTATGGAGCGGTATGACCCAAACATCGATCAGTGGAGTATGCTGGGAGATATGCAGACAGCTCGAGAGGGCGCAGGACTAGTAGTGGCCAGCGGAATAATCTATTGTCTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGAGGGCGCAGGACTAGTA
60.47
GGGTCCTTGCATCTGACTCC
60.11
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGGGCGCAGGACTAGTAG
60.47
GGGTCCTTGCATCTGACTCC
60.11
143
PCR template sequence:
TATGACCCAAACATCGATCAGTGGAGTATGCTGGGAGATATGCAGACAGCTCGAGAGGGCGCAGGACTAGTAGTGGCCAGCGGAATAATCTATTGTCTAGCCTTTCATCCGCTGTAGTTTACAATGCAGAGATCTAGTTGATGAAGCAAAGAAGTTTCACCTGAGGCCTGAACTTCGGAGTCAGATGCAAGGACCCAGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-33-5p(1), mmu-miR-181b-5p(1), mmu-miR-338-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATCTATTGTCTAGCCTTTCATCCGCT
siRNA sets
ATGAAAGGCTAGACAATAG, AGCGGATGAAAGGCTAGAC, TGAAAGGCTAGACAATAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKLHL12_577_ORF_1
0.6951
0.23654104
0.661494218
510
ORF sequence:
ATGCAAGGACCCAGAACAAGGGCCCGGCTAGGAGCCAATGAAGTGCTTCTGGTGGTTGGGGGCTTCGGAAGCCAGCAGTCTCCTATTGATGTGGTAGAGAAGTATGACCCCAAGACACAGGAGTGGAGCTTTTTACCAAGTATCACTCGCAAGAGACGGTATGTGGCCTCAGTTTCCTTACATGATCGGATCTATGTAATTGGTGGCTACGATGGCCGTTCCCGCCTCAGTTCGGTGGAATGTCTAGACTATACAGCAGACGAAGATGGAGTGTGGTACTCTGTGGCCCCTATGAATGTGCGGCGAGGCCTTGCTGGAGCCACCACTCTGGGAGATATGATTTACGTCTCTGGAGGCTTTGATGGAAGTAGGCGTCATACAAGTATGGAGCGGTATGACCCAAACATCGATCAGTGGAGTATGCTGGGAGATATGCAGACAGCTCGAGAGGGCGCAGGACTAGTAGTGGCCAGCGGAATAATCTATTGTCTAGCCTTTCATCCGCTGTAG
Peptide sequence:
MQGPRTRARLGANEVLLVVGGFGSQQSPIDVVEKYDPKTQEWSFLPSITRKRRYVASVSLHDRIYVIGGYDGRSRLSSVECLDYTADEDGVWYSVAPMNVRRGLAGATTLGDMIYVSGGFDGSRRHTSMERYDPNIDQWSMLGDMQTAREGAGLVVASGIIYCLAFHPL
IRESfinder result
IRESfinder score
0.319175617
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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