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mmu_circPtpn2_710
Basic information of circular RNA
PanCircBase ID:
mmu_circPtpn2_710
mm39_Chr. Position ID:
chr18|67805736|67814647|-
Gene name:
Ptpn2
Transcript:
ENSMUST00000120934.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
9,8,7,6,5
Exon/intron offsets:
0,3053,5043,8173,8776
Genomic length:
8911
Exon/intron sizes in nt:
10,21,10,15,32,10,135
Flanking exon/introns:
chr18:67798944-67805736|chr18:67814647-67821960
Splice length:
710
Other database IDs:
CIRCpedia: MMU_CIRCpedia_224200, circAtlas: mmu-Ptpn2_0019
Human Ortholog IDs:
Mature spliced Sequence:
GTTAAATGTGCACAGTACTGGCCAACGGATGACAGAGAAATGGTGTTTAAGGAAACGGGATTCAGTGTGAAGCTCTTATCTGAAGATGTAAAATCATATTATACAGTACATCTACTACAGTTAGAAAATATCAATACTGGTGAAACCAGAACCATATCTCACTTCCATTATACCACCTGGCCAGATTTTGGGGTTCCAGAGTCACCAGCTTCATTTCTAAACTTCTTGTTTAAAGTTAGAGAATCTGGTTGTTTGACCCCTGACCATGGACCTGCAGTGATCCATTGCAGTGCGGGCATCGGGCGCTCTGGCACCTTCTCTCTTGTAGATACCTGTCTTGTTCTGATGGAAAAAGGAGAGGATGTTAATGTGAAACAATTATTACTGAATATGAGAAAGTATCGAATGGGACTTATTCAGACACCGGACCAACTCAGATTCTCCTACATGGCCATAATAGAAGGAGCAAAGTACACAAAAGGAGATTCAAATATACAGAACAGAGTGATGGTTGAGAAGTACAATGGGAAGAGAATAGGTTCAGAAGATGAAAAGTTAACAGGGCTTCCTTCTAAGGTGCAGGATACTGTGGAGGAGAGCAGTGAGAGCATTCTACGGAAACGTATTCGAGAGGATAGAAAGGCTACGACGGCTCAGAAGGTGCAGCAGATGAAACAGAGGCTAAATGAAACTGAACGAAAAAGAAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTACGACGGCTCAGAAGGTG
60.18
AGCTTCACACTGAATCCCGT
59.31
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTACGACGGCTCAGAAGGTG
60.18
AGAGCTTCACACTGAATCCCG
60.07
143
PCR template sequence:
TTCTACGGAAACGTATTCGAGAGGATAGAAAGGCTACGACGGCTCAGAAGGTGCAGCAGATGAAACAGAGGCTAAATGAAACTGAACGAAAAAGAAAAAGGTTAAATGTGCACAGTACTGGCCAACGGATGACAGAGAAATGGTGTTTAAGGAAACGGGATTCAGTGTGAAGCTCTTATCTGAAGATGTAAAATCATATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-18a-5p(1), mmu-miR-138-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-127-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-335-3p(1), mmu-miR-697(1), mmu-miR-339-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAAAAGAAAAAGGTTAAATGTGCAC
siRNA sets
TTTAACCTTTTTCTTTTTC, ATTTAACCTTTTTCTTTTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPTPN2_710_ORF_1
0.7087
0.058793972
0.836072246
741
ORF sequence:
ATGGTGTTTAAGGAAACGGGATTCAGTGTGAAGCTCTTATCTGAAGATGTAAAATCATATTATACAGTACATCTACTACAGTTAGAAAATATCAATACTGGTGAAACCAGAACCATATCTCACTTCCATTATACCACCTGGCCAGATTTTGGGGTTCCAGAGTCACCAGCTTCATTTCTAAACTTCTTGTTTAAAGTTAGAGAATCTGGTTGTTTGACCCCTGACCATGGACCTGCAGTGATCCATTGCAGTGCGGGCATCGGGCGCTCTGGCACCTTCTCTCTTGTAGATACCTGTCTTGTTCTGATGGAAAAAGGAGAGGATGTTAATGTGAAACAATTATTACTGAATATGAGAAAGTATCGAATGGGACTTATTCAGACACCGGACCAACTCAGATTCTCCTACATGGCCATAATAGAAGGAGCAAAGTACACAAAAGGAGATTCAAATATACAGAACAGAGTGATGGTTGAGAAGTACAATGGGAAGAGAATAGGTTCAGAAGATGAAAAGTTAACAGGGCTTCCTTCTAAGGTGCAGGATACTGTGGAGGAGAGCAGTGAGAGCATTCTACGGAAACGTATTCGAGAGGATAGAAAGGCTACGACGGCTCAGAAGGTGCAGCAGATGAAACAGAGGCTAAATGAAACTGAACGAAAAAGAAAAAGGTTAAATGTGCACAGTACTGGCCAACGGATGACAGAGAAATGGTGTTTAAGGAAACGGGATTCAGTGTGA
Peptide sequence:
MVFKETGFSVKLLSEDVKSYYTVHLLQLENINTGETRTISHFHYTTWPDFGVPESPASFLNFLFKVRESGCLTPDHGPAVIHCSAGIGRSGTFSLVDTCLVLMEKGEDVNVKQLLLNMRKYRMGLIQTPDQLRFSYMAIIEGAKYTKGDSNIQNRVMVEKYNGKRIGSEDEKLTGLPSKVQDTVEESSESILRKRIREDRKATTAQKVQQMKQRLNETERKRKRLNVHSTGQRMTEKWCLRKRDSV
IRESfinder result
IRESfinder score
0.581316917
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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