top of page
mmu_circPitpnm1_659
Basic information of circular RNA
PanCircBase ID:
mmu_circPitpnm1_659
mm39_Chr. Position ID:
chr19|4157785|4158867|+
Gene name:
Pitpnm1
Transcript:
ENSMUST00000049658.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
11,12,13,14
Exon/intron offsets:
0,300,637,879
Genomic length:
1082
Exon/intron sizes in nt:
1,90,10,81,58,203
Flanking exon/introns:
chr19:4156962-4157785|chr19:4158867-4159825
Splice length:
659
Other database IDs:
CIRCpedia: MMU_CIRCpedia_19544, circAtlas: mmu-Pitpnm1_0002
Human Ortholog IDs:
Mature spliced Sequence:
CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAGGTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATGAACAATGAGATGCTCTCCCCTGAAGTTGGTCCAGTACGGGACCCGCTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCTGATCCTGATGGCTCTCAGAACAGCCTCCAGGTAGCCTCCACAGCTACCTCCTCTGGGGAGCCCCGCCGTGCAAGCACAGCCTCCTGTCCACCTGCCAGTTCTGAGGCTCCTGACGGCCCCACGAACGCTGCTCGCCTGGACTTCAAGGTCTCAGGCTTCTTCCTCTTTGGCTCCCCACTGGGCCTGGTGCTGGCTCTTCGCAAAACCGTGATGCCCGCCTTGGAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTCCTCTTTGGCTCCCCAC
60.32
GTAGCGAGAGGATGAGGTGG
59.33
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTCCTCTTTGGCTCCCCA
60.48
GTAGCGAGAGGATGAGGTGG
59.33
169
PCR template sequence:
GCTGCTCGCCTGGACTTCAAGGTCTCAGGCTTCTTCCTCTTTGGCTCCCCACTGGGCCTGGTGCTGGCTCTTCGCAAAACCGTGATGCCCGCCTTGGAGGCCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTAC
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-29b-3p(2), mmu-miR-29a-3p(2), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-29c-3p(1), mmu-miR-666-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCGCCTTGGAGGCCTGAGCCCCTAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPITPNM1_659_ORF_1
0.9955
0.381681136
0.690123388
369
ORF sequence:
ATGAACAATGAGATGCTCTCCCCTGAAGTTGGTCCAGTACGGGACCCGCTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCTGATCCTGATGGCTCTCAGAACAGCCTCCAGGTAGCCTCCACAGCTACCTCCTCTGGGGAGCCCCGCCGTGCAAGCACAGCCTCCTGTCCACCTGCCAGTTCTGAGGCTCCTGACGGCCCCACGAACGCTGCTCGCCTGGACTTCAAGGTCTCAGGCTTCTTCCTCTTTGGCTCCCCACTGGGCCTGGTGCTGGCTCTTCGCAAAACCGTGATGCCCGCCTTGGAGGCCTGA
Peptide sequence:
MNNEMLSPEVGPVRDPLADGVEVLGRASPEPSALPAQRTFSDMANPDPDGSQNSLQVASTATSSGEPRRASTASCPPASSEAPDGPTNAARLDFKVSGFFLFGSPLGLVLALRKTVMPALEA
IRESfinder result
IRESfinder score
0.32758122
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page