top of page
mmu_circPtprn2_625
Basic information of circular RNA
PanCircBase ID:
mmu_circPtprn2_625
mm39_Chr. Position ID:
chr12|116835555|116839992|+
Gene name:
Ptprn2
Transcript:
ENSMUST00000189009.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,8,9
Exon/intron offsets:
0,1715,4054
Genomic length:
4437
Exon/intron sizes in nt:
201,41,383
Flanking exon/introns:
chr12:116822811-116835555|chr12:116839992-116852458
Splice length:
625
Other database IDs:
CIRCpedia: MMU_CIRCpedia_36400, circAtlas: mmu-Ptprn2_0005
circBase: hsa_circ_0133824, circAtlas: hsa-PTPRN2_0013, CIRCpedia: HSA_CIRCpedia_133162
Human Ortholog IDs:
Mature spliced Sequence:
ACACACTCCTGCAGAGTCTCCTGAAGGATTTGCAGCAGAACTCTGAAGTGGACCGCCTGGGCCCCCTGAAGGAGGAGAAAGCAGACTCAGTTGCTGGAGCCATACAAAGTGATCCTGCAGAGGGAAGCCAAGAAAGCCACGGGAGAGGGGCTGAAGGACAGCCAAGAGAGCAGACAGATGCCCCAGAGACAATGCTTCAAGATCACAGACTATCAGAGGTGGATGACCCAGTGTACAAGGAGGTCAACCGTCTGAGCTTCCAGCTTGGGGACCTCTTGAAGGACTATGGGTCTCCTCTCTTACCTGAAGGTCCCCTTCTAGAAAAATCCTCCAGAGAAGAGATTAAGAAATCAGAGCAGCCAGAGGAGGTCTTGTCTTCAGAAGAGGAGACTGCTGGGGTGGAGCATGTGAGGAGCCGGACTTACTCCAAAGACCTATTTGAAAGGAAACCAAACTCAGAGCCCCAGCCCAGGAGGCTTGAGGATCAGTTCCAAAACCGAGCTCCAGAGTTGTGGGAGGATGAAGAAAGCCTCAAATTGGCAGCACAGGGACCCCCTAGTGGAGGCCTACAGCTGGAAGTGCAGCCTTCTGAGGAACAGCAGGGATACATCCTCACAGGAAACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAATTGGCAGCACAGGGAC
60.04
GCTTTCTCCTCCTTCAGGGG
59.75
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAAATTGGCAGCACAGGGAC
60.04
GCGGTCCACTTCAGAGTTCT
59.68
149
PCR template sequence:
AAAGCCTCAAATTGGCAGCACAGGGACCCCCTAGTGGAGGCCTACAGCTGGAAGTGCAGCCTTCTGAGGAACAGCAGGGATACATCCTCACAGGAAACAAACACACTCCTGCAGAGTCTCCTGAAGGATTTGCAGCAGAACTCTGAAGTGGACCGCCTGGGCCCCCTGAAGGAGGAGAAAGCAGACTCAGTTGCTGGAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-680(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCACAGGAAACAAACACACTCCTGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPTPRN2_625_ORF_1
1.0154
0.284477208
0.954338092
729
ORF sequence:
ATGAAGAAAGCCTCAAATTGGCAGCACAGGGACCCCCTAGTGGAGGCCTACAGCTGGAAGTGCAGCCTTCTGAGGAACAGCAGGGATACATCCTCACAGGAAACAAACACACTCCTGCAGAGTCTCCTGAAGGATTTGCAGCAGAACTCTGAAGTGGACCGCCTGGGCCCCCTGAAGGAGGAGAAAGCAGACTCAGTTGCTGGAGCCATACAAAGTGATCCTGCAGAGGGAAGCCAAGAAAGCCACGGGAGAGGGGCTGAAGGACAGCCAAGAGAGCAGACAGATGCCCCAGAGACAATGCTTCAAGATCACAGACTATCAGAGGTGGATGACCCAGTGTACAAGGAGGTCAACCGTCTGAGCTTCCAGCTTGGGGACCTCTTGAAGGACTATGGGTCTCCTCTCTTACCTGAAGGTCCCCTTCTAGAAAAATCCTCCAGAGAAGAGATTAAGAAATCAGAGCAGCCAGAGGAGGTCTTGTCTTCAGAAGAGGAGACTGCTGGGGTGGAGCATGTGAGGAGCCGGACTTACTCCAAAGACCTATTTGAAAGGAAACCAAACTCAGAGCCCCAGCCCAGGAGGCTTGAGGATCAGTTCCAAAACCGAGCTCCAGAGTTGTGGGAGGATGAAGAAAGCCTCAAATTGGCAGCACAGGGACCCCCTAGTGGAGGCCTACAGCTGGAAGTGCAGCCTTCTGAGGAACAGCAGGGATACATCCTCACAGGAAAC
Peptide sequence:
MKKASNWQHRDPLVEAYSWKCSLLRNSRDTSSQETNTLLQSLLKDLQQNSEVDRLGPLKEEKADSVAGAIQSDPAEGSQESHGRGAEGQPREQTDAPETMLQDHRLSEVDDPVYKEVNRLSFQLGDLLKDYGSPLLPEGPLLEKSSREEIKKSEQPEEVLSSEEETAGVEHVRSRTYSKDLFERKPNSEPQPRRLEDQFQNRAPELWEDEESLKLAAQGPPSGGLQLEVQPSEEQQGYILTGN
IRESfinder result
IRESfinder score
0.466881798
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page