top of page
mmu_circMpnd_240
Basic information of circular RNA
PanCircBase ID:
mmu_circMpnd_240
mm39_Chr. Position ID:
chr17|56321940|56322278|+
Gene name:
Mpnd
Transcript:
ENSMUST00000149441.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
9,10
Exon/intron offsets:
0,267
Genomic length:
338
Exon/intron sizes in nt:
169,71
Flanking exon/introns:
chr17:56319492-56321940|chr17:56322278-56322470
Splice length:
240
Other database IDs:
CIRCpedia: MMU_CIRCpedia_23413, circAtlas: mmu-Mpnd_0002
CIRCpedia: HSA_CIRCpedia_26044
Human Ortholog IDs:
Mature spliced Sequence:
ATCTACCAGGTCCTGTTCCTTCGAGGCCTGTCCCTGGTGGGCTGGTACCACAGCCACCCACACAGCCCTGCAGTACCCTCCTTGCAGGACATTGACGCACAGATGGAGTACCAGTTGAGACTGCAAGGCTCCAGCAATGGCTTCCAGCCCTGCCTGGCCCTGCTGTGCTCCCCCTACTACTCTGGCAACCCAGGCCCTGAGTCCAAGATCTGCCCTTTCTGGGTGATGCCTCCCCCTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCCCTGAGTCCAAGATCT
59.96
GTGCGTCAATGTCCTGCAAG
60.11
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGAGTCCAAGATCTGCCC
59.82
GTGCGTCAATGTCCTGCAAG
60.11
145
PCR template sequence:
CTTCCAGCCCTGCCTGGCCCTGCTGTGCTCCCCCTACTACTCTGGCAACCCAGGCCCTGAGTCCAAGATCTGCCCTTTCTGGGTGATGCCTCCCCCTGAGATCTACCAGGTCCTGTTCCTTCGAGGCCTGTCCCTGGTGGGCTGGTACCACAGCCACCCACACAGCCCTGCAGTACCCTCCTTGCAGGACATTGACGCAC
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-214-3p(1), mmu-miR-452-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCCTCCCCCTGAGATCTACCAGGTCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMPND_240_ORF_1
1.1971
0.365486065
0.767443446
378
ORF sequence:
ATGGAGTACCAGTTGAGACTGCAAGGCTCCAGCAATGGCTTCCAGCCCTGCCTGGCCCTGCTGTGCTCCCCCTACTACTCTGGCAACCCAGGCCCTGAGTCCAAGATCTGCCCTTTCTGGGTGATGCCTCCCCCTGAGATCTACCAGGTCCTGTTCCTTCGAGGCCTGTCCCTGGTGGGCTGGTACCACAGCCACCCACACAGCCCTGCAGTACCCTCCTTGCAGGACATTGACGCACAGATGGAGTACCAGTTGAGACTGCAAGGCTCCAGCAATGGCTTCCAGCCCTGCCTGGCCCTGCTGTGCTCCCCCTACTACTCTGGCAACCCAGGCCCTGAGTCCAAGATCTGCCCTTTCTGGGTGATGCCTCCCCCTGAG
Peptide sequence:
MEYQLRLQGSSNGFQPCLALLCSPYYSGNPGPESKICPFWVMPPPEIYQVLFLRGLSLVGWYHSHPHSPAVPSLQDIDAQMEYQLRLQGSSNGFQPCLALLCSPYYSGNPGPESKICPFWVMPPPE
IRESfinder result
IRESfinder score
0.518148292
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page