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mmu_ciHip1r_182
Basic information of circular RNA
PanCircBase ID:
mmu_ciHip1r_182
mm39_Chr. Position ID:
chr5|124127796|124127978|+
Gene name:
Hip1r
Transcript:
ENSMUST00000000939.15
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
182
Exon/intron sizes in nt:
182
Flanking exon/introns:
chr5:124127796-124127999
Splice length:
182
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTAGTGAGCACAGCCCTTGGTCCCACAGGCTCAGGCAAGCGCCGCCGCCATGCCACCAGCTGACATCATCCACTGTATCCCATGGAAGTGTGCTGCTCTGACATGTGTCTGTCCTCCTGGGCTGGGGGCTGGACACCCTGCCCAGTGCTGGGAGGGACGGCTCAGGTTCTGTGTCCTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGCTGCTCTGACATGTGT
59.89
TGGATGATGTCAGCTGGTGG
59.75
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATGTGTCTGTCCTCCTGGG
59.75
TGGATGATGTCAGCTGGTGG
59.75
153
PCR template sequence:
GTGTGCTGCTCTGACATGTGTCTGTCCTCCTGGGCTGGGGGCTGGACACCCTGCCCAGTGCTGGGAGGGACGGCTCAGGTTCTGTGTCCTCGTGAGTAGTGAGCACAGCCCTTGGTCCCACAGGCTCAGGCAAGCGCCGCCGCCATGCCACCAGCTGACATCATCCACTGTATCCCATGGAA
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-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-15b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTCTGTGTCCTCGTGAGTAGTGAGC
siRNA sets
CTACTCACGAGGACACAGA,ACTACTCACGAGGACACAG,TCACTACTCACGAGGACAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIHIP1R_182_ORF_1
0.5132
-0.029539866
0.061257843
234
ORF sequence:
ATGCCACCAGCTGACATCATCCACTGTATCCCATGGAAGTGTGCTGCTCTGACATGTGTCTGTCCTCCTGGGCTGGGGGCTGGACACCCTGCCCAGTGCTGGGAGGGACGGCTCAGGTTCTGTGTCCTCGTGAGTAGTGAGCACAGCCCTTGGTCCCACAGGCTCAGGCAAGCGCCGCCGCCATGCCACCAGCTGACATCATCCACTGTATCCCATGGAAGTGTGCTGCTCTGA
Peptide sequence:
MPPADIIHCIPWKCAALTCVCPPGLGAGHPAQCWEGRLRFCVLVSSEHSPWSHRLRQAPPPCHQLTSSTVSHGSVLL
IRESfinder result
IRESfinder score
0.276943462
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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