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mmu_circHectd4_483
Basic information of circular RNA
PanCircBase ID:
mmu_circHectd4_483
mm39_Chr. Position ID:
chr5|121491553|121493732|+
Gene name:
Hectd4
Transcript:
ENSMUST00000042614.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
63,64,65
Exon/intron offsets:
0,323,2072
Genomic length:
2179
Exon/intron sizes in nt:
22,41,52,107
Flanking exon/introns:
chr5:121488700-121491553|chr5:121493732-121494265
Splice length:
483
Other database IDs:
circAtlas: mmu-Gm15800_0061
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGAAACTGGTGCCTGGGGCCAGAGAGGTCCTGACAGAAATATTTAAAAGCTGTGCCCACTCAGAGCAGACGCTGAGCCTGACACCAGCCAAACCCATCAGGGTCTCTGACATCTATCTTAGCAAAGAGCAGATCAACTCCCAGACTCCAGGCAACCTCCTACACCTCTTCTTCACCAATGTCCGGCCTCCAAAGAAAGTGCTGGAGGACCAGCTCACACAGATCCTGAGGAAATACGGCGTGCCCAAGCCCAAACTGGATAAGAGCAAGTACAGCAAGGCTGGCAAGGAGCAGCACCCGGTGAAGGTGGTGAGCACCAAGCGGCCCGTCACCAAGCCGCCTGCCAAGGACAAAGCCGTGCTCAGCAGCCTCAGCAGGACTGCACTAAGTGAGAAGAAGCCGACTGTGAAGCCAAAATCACCTGAGAAGAGCAAACCAGACGAAAAGGATCCAGAGAAGTCACCCACCAAAAAGCAAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCGACTGTGAAGCCAAAA
60.47
TCTGAGTGGGCACAGCTTTT
59.82
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCCGACTGTGAAGCCAAA
60.47
TCTGAGTGGGCACAGCTTTT
59.82
152
PCR template sequence:
GCACTAAGTGAGAAGAAGCCGACTGTGAAGCCAAAATCACCTGAGAAGAGCAAACCAGACGAAAAGGATCCAGAGAAGTCACCCACCAAAAAGCAAGAAGGTGAGAAACTGGTGCCTGGGGCCAGAGAGGTCCTGACAGAAATATTTAAAAGCTGTGCCCACTCAGAGCAGACGCTGAGCCTGACACCAGCCAAACCCAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-138-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-676-3p(1), mmu-miR-370-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
AAAAAGCAAGAAGGTGAGAAACTGGT
siRNA sets
CAGTTTCTCACCTTCTTGC, TTTCTCACCTTCTTGCTTT, AGTTTCTCACCTTCTTGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.345787705
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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