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mmu_ciHectd1_508
Basic information of circular RNA
PanCircBase ID:
mmu_ciHectd1_508
mm39_Chr. Position ID:
chr12|51792368|51792876|-
Gene name:
Hectd1
Transcript:
ENSMUST00000042052.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
40
Exon/intron offsets:
0
Genomic length:
508
Exon/intron sizes in nt:
508
Flanking exon/introns:
chr12:51792314-51792876
Splice length:
508
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAATTTTAAAGGACAATGAGTTCCTTCTACTTTGACATTAACATCAACAATCAACACTGCTAAGTATTGTCGTCAAATTTGCCCCTAAGTTCTGGTCCAGCAGCGTGAGTAGTCAGGACATGTTTGAACACTAGATGTGTTCTTTCCTCTTATTCCCCTGGAGGAATGGAGACCTCACCCTCTTTTGTTCATTTGTAAGTGGATATAAATTTATCCACTTACTGTCTAACACAGTGAGGGTGAATTAAACTGTAAGTCACTTGAAAACATGAACACAACCTTGGCTGCTTTTATGATAGAGCGTATCGCTTGAGGTCAGACTGATAGTTACAATAAATGAGAGTTTGTCAGTTGACTATAGTGAGCAAATGTTCTTTGTGCTCACATGTTTTGAGGGTTAGGGTGCTGAGGACTGATCCCTGGCCCATCTCTCTCCACAGAGATTTGTATTTGTGATTTTTGGAATCATGACTTAGGAACTGAGTCTGTGCTTTGCTCTTTTCTTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCCCTGGCCCATCTCTCTC
60.47
AGGGGCAAATTTGACGACAA
58.3
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATCCCTGGCCCATCTCTCT
60.47
AGGGGCAAATTTGACGACAA
58.3
180
PCR template sequence:
GAGGACTGATCCCTGGCCCATCTCTCTCCACAGAGATTTGTATTTGTGATTTTTGGAATCATGACTTAGGAACTGAGTCTGTGCTTTGCTCTTTTCTTTTGTAATTTTAAAGGACAATGAGTTCCTTCTACTTTGACATTAACATCAACAATCAACACTGCTAAGTATTGTCGTCAAATTTGCCCCTAAGTTCTGGTCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-34c-5p(1), mmu-miR-136-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTCTTTTCTTTTGTAATTTTAAAGG
siRNA sets
AAAATTACAAAAGAAAAGA, TAAAATTACAAAAGAAAAG, AAATTACAAAAGAAAAGAG
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
0.895861183
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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