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mmu_ciHps3_810
Basic information of circular RNA
PanCircBase ID:
mmu_ciHps3_810
mm39_Chr. Position ID:
chr3|20056578|20057388|-
Gene name:
Hps3
Transcript:
ENSMUST00000012580.13
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
15
Exon/intron offsets:
0
Genomic length:
810
Exon/intron sizes in nt:
810
Flanking exon/introns:
chr3:20056577-20057388
Splice length:
810
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGTGTTTCAGATTGTGCTTCTAGCCTTGATCAGTGGAGAGGAGGTTTGGTACTTTGCTTGGCTTATCTGCAGAATGAGGGCTGTTTATGTTAGTCTAGCTTTACAGGGCTGTGCGTCGAAGGAACGTGTATGTTTAATGGTAGACATTTCTTTTTCTTAAGATTCATTTATTATATATAAGTATACTGTAGCTGTCTTCAGACACTCCAGAAGAGGGCGCCAGATCTCATTAGGGATGGTGGTGAGCCACCATGTGGTTGCTGGAATTGGAACTCAGGAGCAGTCAGTGCTCTTACTCACTGAGCCATCTCTCCAGCTCCAGTGGTAGACATTTCGAGTACTTGTAGATGCTATTAAAATACATGAGGATGATTTATCTCATTTCTGGAGAGGTCTTTTGTTCAGATAAGATCACTGATAACTTAAGGTGTGGGGGTCAGTGTGTGGTGGGGAAGATTCCATCTCTATATTTGGTCTTTAATTTACCAGCTAGACCAATTTCAGCTTTAGCATTTTTCTTTTTCCCCCACTTCTTGACAACCACGAAAAAAGGGAAGGCGTATCCACATTTTGCGTTGAAAATAAATAATGTGAACATGTGTACCGCTAGTTGCAGGCCTGCCTTTTGTTTTAAGTTTCATCAGGAGCCTCGCTGCGGGGGATTAAATCCTTGTTATAACAGAGGTGCTTCCTTAAGTAAAGGATGTAGTTTTTCTGTGTGCTCTCTTCTGCACCGCCTCCTTACTCTCACGAGGAAGCTGGGGATCAAGTGCATCAAACTAAAATGGATTTATTTTCCATAAGATA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACCGCCTCCTTACTCTCAC
59.83
AACAGCCCTCATTCTGCAGA
59.31
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGAGGAAGCTGGGGATCAAG
60.18
AACAGCCCTCATTCTGCAGA
59.31
145
PCR template sequence:
AGTTTTTCTGTGTGCTCTCTTCTGCACCGCCTCCTTACTCTCACGAGGAAGCTGGGGATCAAGTGCATCAAACTAAAATGGATTTATTTTCCATAAGATAGTATGTGTTTCAGATTGTGCTTCTAGCCTTGATCAGTGGAGAGGAGGTTTGGTACTTTGCTTGGCTTATCTGCAGAATGAGGGCTGTTTATGTTAGTCTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-30c-5p(1), mmu-miR-139-5p(1), mmu-miR-24-3p(1), mmu-miR-690(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
TTTCCATAAGATAGTATGTGTTTCAG
siRNA sets
AACACATACTATCTTATGG, ACACATACTATCTTATGGA, AAACACATACTATCTTATG
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
0.874568704
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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