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mmu_circHadha_465
Basic information of circular RNA
PanCircBase ID:
mmu_circHadha_465
mm39_Chr. Position ID:
chr5|30339055|30347836|-
Gene name:
Hadha
Transcript:
ENSMUST00000156859.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
9,8,7,6
Exon/intron offsets:
0,921,6891,8661
Genomic length:
8781
Exon/intron sizes in nt:
1,19,12,31,03,120
Flanking exon/introns:
chr5:30337294-30339055|chr5:30347836-30349156
Splice length:
465
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTTGCCATAGCATGCCAATACAGAATAGCAACAAAAGACAGAAAAACAGTATTAGGTGTCCCTGAAGTGTTGCTGGGGATCTTACCAGGAGCCGGAGGTACCCAGAGACTGCCCAAAATGGTGGGTGTGCCTGCTGCATTTGACATGATGCTGACTGGCAGGAACATTCGTGCAGACAGAGCAAAGAAAATGGGACTGGTTGACCAGTTGGTGGAACCGCTGGGACCAGGAATAAAATCACCAGAAGAAAGGACAATTGAATACCTAGAGGAAGTTGCAGTTAATTTTGCCAAAGGCCTGGCTGATCGGAAAGTCTCTGCAAAGCAGAGCAAAGGCCTTGTGGAAAAGCTGACAACGTATGCCATGACTGTCCCATTTGTCAGACAACAGGTTTACAAAACAGTTGAAGAAAAAGTGAAGAAGCAGACTAAAGGCCTTTATCCTGCCCCTTTGAAAATAATTGAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCATTTGTCAGACAACAGGT
59.83
ATCCCCAGCAACACTTCAGG
59.96
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCATTTGTCAGACAACAGGT
59.83
AGCAACACTTCAGGGACACC
60.18
169
PCR template sequence:
GACTGTCCCATTTGTCAGACAACAGGTTTACAAAACAGTTGAAGAAAAAGTGAAGAAGCAGACTAAAGGCCTTTATCCTGCCCCTTTGAAAATAATTGATCTTGCCATAGCATGCCAATACAGAATAGCAACAAAAGACAGAAAAACAGTATTAGGTGTCCCTGAAGTGTTGCTGGGGATCTTACCAGGAGCCGGAGGTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-326-3p(1), mmu-miR-214-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAAATAATTGATCTTGCCATAGCAT
siRNA sets
TATGGCAAGATCAATTATT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHADHA_465_ORF_1
0.9955
0.162629035
0.957637912
813
ORF sequence:
ATGGTGGGTGTGCCTGCTGCATTTGACATGATGCTGACTGGCAGGAACATTCGTGCAGACAGAGCAAAGAAAATGGGACTGGTTGACCAGTTGGTGGAACCGCTGGGACCAGGAATAAAATCACCAGAAGAAAGGACAATTGAATACCTAGAGGAAGTTGCAGTTAATTTTGCCAAAGGCCTGGCTGATCGGAAAGTCTCTGCAAAGCAGAGCAAAGGCCTTGTGGAAAAGCTGACAACGTATGCCATGACTGTCCCATTTGTCAGACAACAGGTTTACAAAACAGTTGAAGAAAAAGTGAAGAAGCAGACTAAAGGCCTTTATCCTGCCCCTTTGAAAATAATTGATCTTGCCATAGCATGCCAATACAGAATAGCAACAAAAGACAGAAAAACAGTATTAGGTGTCCCTGAAGTGTTGCTGGGGATCTTACCAGGAGCCGGAGGTACCCAGAGACTGCCCAAAATGGTGGGTGTGCCTGCTGCATTTGACATGATGCTGACTGGCAGGAACATTCGTGCAGACAGAGCAAAGAAAATGGGACTGGTTGACCAGTTGGTGGAACCGCTGGGACCAGGAATAAAATCACCAGAAGAAAGGACAATTGAATACCTAGAGGAAGTTGCAGTTAATTTTGCCAAAGGCCTGGCTGATCGGAAAGTCTCTGCAAAGCAGAGCAAAGGCCTTGTGGAAAAGCTGACAACGTATGCCATGACTGTCCCATTTGTCAGACAACAGGTTTACAAAACAGTTGAAGAAAAAGTGAAGAAGCAGACTAAAGGCCTTTATCCTGCCCCTTTGAAAATAATTGAT
Peptide sequence:
MVGVPAAFDMMLTGRNIRADRAKKMGLVDQLVEPLGPGIKSPEERTIEYLEEVAVNFAKGLADRKVSAKQSKGLVEKLTTYAMTVPFVRQQVYKTVEEKVKKQTKGLYPAPLKIIDLAIACQYRIATKDRKTVLGVPEVLLGILPGAGGTQRLPKMVGVPAAFDMMLTGRNIRADRAKKMGLVDQLVEPLGPGIKSPEERTIEYLEEVAVNFAKGLADRKVSAKQSKGLVEKLTTYAMTVPFVRQQVYKTVEEKVKKQTKGLYPAPLKIID
IRESfinder result
IRESfinder score
0.452664364
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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