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mmu_ciHps5_961
Basic information of circular RNA
PanCircBase ID:
mmu_ciHps5_961
mm39_Chr. Position ID:
chr7|46427534|46428495|-
Gene name:
Hps5
Transcript:
ENSMUST00000107653.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
9
Exon/intron offsets:
0
Genomic length:
961
Exon/intron sizes in nt:
961
Flanking exon/introns:
chr7:46427524-46428495
Splice length:
961
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAATTATATTTTTCTTTCTAAGGTAACTTAGTCTCATAATTATGTGTGAAAATTAATTGTATGGTGATTCTTTTATAATGAGAGAAGTTGAAAATGCAGGGAATAATTGTGTGTGACTAACACAGAGAAAATCAGTCCTTGCGCTCTTGGTTAAAACCAGACGCACGGGAAAGTTTGCCACCGCTGCTAAGACAGTTCCTTGACGTTGGCTTTGGGGTCTTCTGAGAAAGGAGGGGGTCATCATTGATCCACAGCGTTTTCTTGTAGGTTTATCTTCCCCAGTTGAGGATGCCCCTTGCAACCTAGTTTGTTAAATTCTTTCAAGGTGTTTAGTCAAGACAGATACCTCTTCATGTATGATTAATTTTACTCACTATATTTTAAAAGATATGTAACTTCACTCTTTTAAATACTTGTTAAAACCTGTTCATGTGAACACCAGGTTGTAACTCTCTGGAATGTTCTCTAGCTCAAAGCATAGTTCCTACTTTCTCACTCGCAATTCCTTTTCATGGGAAATAGTGTATTACACGTTAGATTTTTAGATCAGAGAGCTGTGGGTTTTTGTTTTGTAATTTTAGAAAAGTATCTAAACATGATTTCTTTATTGAAGTACAAGTATAAAAAGGTGAAATTTCAGTGAGCCAAATCTTATTCACTTTATAAGTATGATTATAGCCCGTGTCAAAATGGTAGCATTTCCCAGTTCACTGCTGGGAATCTAATGTGGGACTTGGTACATTGTATAAGTGCCCTTTTACAAGCCGCATCCCCAGCGGGGGCCTTACAAAAACAGTAAATGGTGTTTGATTAATATCCTGTCTGTTAACCCTTGTGAGCTTTTTTTTTTTTTAACCTTTGTTGTTTTTAGATATTCAGGATGTAGCTGTCTACAAGAATGAATTGTTCTGTTTACACTTTAATGGAAAAATCTCACATCTTTCCCTGTTGTCTGTGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTGTCTACAAGAATGAATTGT
56.19
CTGCATTTTCAACTTCTCTCAT
55.01
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTGTCTACAAGAATGAATTGTTCT
59.06
CTGCATTTTCAACTTCTCTCAT
55.01
176
PCR template sequence:
GTTGTTTTTAGATATTCAGGATGTAGCTGTCTACAAGAATGAATTGTTCTGTTTACACTTTAATGGAAAAATCTCACATCTTTCCCTGTTGTCTGTGGAGGTAATTATATTTTTCTTTCTAAGGTAACTTAGTCTCATAATTATGTGTGAAAATTAATTGTATGGTGATTCTTTTATAATGAGAGAAGTTGAAAATGCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1), mmu-miR-222-3p(1), mmu-miR-495-3p(1), mmu-miR-503-5p(1), mmu-miR-340-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
GTTGTCTGTGGAGGTAATTATATTTT
siRNA sets
AATATAATTACCTCCACAG, AAAATATAATTACCTCCAC, TATAATTACCTCCACAGAC
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
0.941394463
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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