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mmu_circNpepps_1195
Basic information of circular RNA
PanCircBase ID:
mmu_circNpepps_1195
mm39_Chr. Position ID:
chr11|97104596|97127047|-
Gene name:
Npepps
Transcript:
ENSMUST00000165489.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
13,12,11,10,9,8,7,6,5,4
Exon/intron offsets:
0,4020,4737,9180,10888,12958,16059,18118,21284,22294
Genomic length:
22451
Exon/intron sizes in nt:
10,85,71,43,22,01,35,10,00,00,00,00,000
Flanking exon/introns:
chr11:97104013-97104596|chr11:97127047-97128919
Splice length:
1195
Other database IDs:
circAtlas: mmu-Npepps_0036
Human Ortholog IDs:
Mature spliced Sequence:
TGTTACAGGCTGTCTGCTTCCTGTCATAACCCTGAATCACACTGTCTGCCAGGTCAGTGTGGGCCATCCGTCTGAGGTTGATGAGATATTTGATGCTATATCATATAGCAAAGGTGCATCTGTAATCCGAATGCTACATGACTACATTGGTGATAAGGACTTTAAGAAAGGAATGAATATGTATTTAACCAAGTTCCAACAAAAGAATGCTGCCACAGAGGATCTCTGGGAAAGTTTGGAAAGTGCCAGTGGCAAACCCATAGCAGCTGTGATGAATACCTGGACCAAACAAATGGGATTCCCTCTCATTTATGTGGAAGCTGAACAGGTAGAAGATGACAGAGTGCTGAAGCTGTCTCAGAAGAAGTTTTGTGCCAGTGGACCATATGGCGGTGAAGACTGTCCTCAGTGGATGGTTCCTATCACAATTTCAACTAGTGAGGATCCTAACCAGGCTAAGCTGAAAATACTAATGGATAAGCCAGAGATGAGTGTGGTTTTGAAAAATGTCAAACCAGACCAATGGGTAAAGCTAAATCTGGGAACAGTTGGGTTTTATCGAACCCAGTACAGCTCTGCCATGCTCGAAAGTTTATTACCAGGCATCCGTGACCTTTCTCTGCCCCCAGTGGATCGACTTGGATTACAGAATGACCTCTTTTCTCTGGCTCGAGCTGGCATCATTAGCACTGTAGAGGTTCTAAAAGTCATGGAGGCTTTTGTGAATGAGCCCAATTATACTGTATGGAGCGACCTGAGCTGTAACCTGGGGATTCTTTCAACTCTCTTGTCCCACACAGACTTCTATGAGGAAATCCAGGAGTTTGTCAAAGATGTCTTTTCACCTATAGGAGAGAGATTGGGCTGGGACCCCAAACCTGGAGAAGGTCATCTAGACGCACTCCTGAGGGGCTTGGTGCTGGGCAAACTGGGAAAAGCAGGCCATAAGGCAACTTTGGAAGAAGCCCGTCGTCGGTTTAAGGAGCACGTGGAAGGGAAACAGATTCTTTCTGCTGACCTAAGGAGTCCTGTCTATCTCACTGTTTTAAAGCATGGGGATGGCGCTACCTTAGATATCATGCTGAAGCTTCACAAACAAGCTGATATGCAAGAAGAGAAAAACAGAATTGAAAGAGTTCTTGGGGCTACTCTTTCACCTGAACTGATTCAAAAAGTCCTTACTTTTGCACTTTCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTGGGGCTACTCTTTCACC
59.37
ATCAACCTCAGACGGATGGC
59.82
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCTTGGGGCTACTCTTTCACC
59.96
ATCAACCTCAGACGGATGGC
59.82
141
PCR template sequence:
ACAAGCTGATATGCAAGAAGAGAAAAACAGAATTGAAAGAGTTCTTGGGGCTACTCTTTCACCTGAACTGATTCAAAAAGTCCTTACTTTTGCACTTTCATGTTACAGGCTGTCTGCTTCCTGTCATAACCCTGAATCACACTGTCTGCCAGGTCAGTGTGGGCCATCCGTCTGAGGTTGATGAGATATTTGATGCTATA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-135a-5p(1), mmu-miR-106b-5p(1), mmu-miR-130a-3p(1), mmu-miR-139-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-127-5p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-5101(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTTGCACTTTCATGTTACAGGCTGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNPEPPS_1195_ORF_1
1.0637
0.121387407
0.995512941
1140
ORF sequence:
ATGCTACATGACTACATTGGTGATAAGGACTTTAAGAAAGGAATGAATATGTATTTAACCAAGTTCCAACAAAAGAATGCTGCCACAGAGGATCTCTGGGAAAGTTTGGAAAGTGCCAGTGGCAAACCCATAGCAGCTGTGATGAATACCTGGACCAAACAAATGGGATTCCCTCTCATTTATGTGGAAGCTGAACAGGTAGAAGATGACAGAGTGCTGAAGCTGTCTCAGAAGAAGTTTTGTGCCAGTGGACCATATGGCGGTGAAGACTGTCCTCAGTGGATGGTTCCTATCACAATTTCAACTAGTGAGGATCCTAACCAGGCTAAGCTGAAAATACTAATGGATAAGCCAGAGATGAGTGTGGTTTTGAAAAATGTCAAACCAGACCAATGGGTAAAGCTAAATCTGGGAACAGTTGGGTTTTATCGAACCCAGTACAGCTCTGCCATGCTCGAAAGTTTATTACCAGGCATCCGTGACCTTTCTCTGCCCCCAGTGGATCGACTTGGATTACAGAATGACCTCTTTTCTCTGGCTCGAGCTGGCATCATTAGCACTGTAGAGGTTCTAAAAGTCATGGAGGCTTTTGTGAATGAGCCCAATTATACTGTATGGAGCGACCTGAGCTGTAACCTGGGGATTCTTTCAACTCTCTTGTCCCACACAGACTTCTATGAGGAAATCCAGGAGTTTGTCAAAGATGTCTTTTCACCTATAGGAGAGAGATTGGGCTGGGACCCCAAACCTGGAGAAGGTCATCTAGACGCACTCCTGAGGGGCTTGGTGCTGGGCAAACTGGGAAAAGCAGGCCATAAGGCAACTTTGGAAGAAGCCCGTCGTCGGTTTAAGGAGCACGTGGAAGGGAAACAGATTCTTTCTGCTGACCTAAGGAGTCCTGTCTATCTCACTGTTTTAAAGCATGGGGATGGCGCTACCTTAGATATCATGCTGAAGCTTCACAAACAAGCTGATATGCAAGAAGAGAAAAACAGAATTGAAAGAGTTCTTGGGGCTACTCTTTCACCTGAACTGATTCAAAAAGTCCTTACTTTTGCACTTTCATGTTACAGGCTGTCTGCTTCCTGTCATAACCCTGAATCACACTGTCTGCCAGGTCAGTGTGGGCCATCCGTCTGA
Peptide sequence:
MLHDYIGDKDFKKGMNMYLTKFQQKNAATEDLWESLESASGKPIAAVMNTWTKQMGFPLIYVEAEQVEDDRVLKLSQKKFCASGPYGGEDCPQWMVPITISTSEDPNQAKLKILMDKPEMSVVLKNVKPDQWVKLNLGTVGFYRTQYSSAMLESLLPGIRDLSLPPVDRLGLQNDLFSLARAGIISTVEVLKVMEAFVNEPNYTVWSDLSCNLGILSTLLSHTDFYEEIQEFVKDVFSPIGERLGWDPKPGEGHLDALLRGLVLGKLGKAGHKATLEEARRRFKEHVEGKQILSADLRSPVYLTVLKHGDGATLDIMLKLHKQADMQEEKNRIERVLGATLSPELIQKVLTFALSCYRLSASCHNPESHCLPGQCGPSV
IRESfinder result
IRESfinder score
0.609832196
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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