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mmu_ciPtprm_785
Basic information of circular RNA
PanCircBase ID:
mmu_ciPtprm_785
mm39_Chr. Position ID:
chr17|67352193|67352978|-
Gene name:
Ptprm
Transcript:
ENSMUST00000037974.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
785
Exon/intron sizes in nt:
785
Flanking exon/introns:
chr17:67349383-67352978
Splice length:
785
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATTTAATGTGTTTTTATTCCCCCACGTAGTCTATTAAAATAGACACGCTTACCTAGTTGTCTGCTCATTATTTGTTTATGCTCAAACTTATCCTGTCTGCCTCTGAATGGTAGTTTGGCGTTAGGCTATATTGATGGATTGCATTTTAAGTACAAATTTTGCATGTGAGCAATGCTTCCGGAAAATGCATGTGATTGATGTTGCTTTAGTAGCACACAGGGCAGCGACTGTGCTCTCAACCAGGGTTGCAACCAGCTCTGTGGATACAGATTACAACCTATAATTTTTTTTTAAAGGAATGAATTTTTTTTCCTCTGATAGAAAATCACTTAAAATGCAAATATTCACCAGGCCGGGTGTTTATGATAGTGAGGTTGTTAATAAAACGGAGCAATGTCTGTATAAAAAGCCCTGATAGATCATGGATGCTGTGTTGGTAGCAGTGTCTTAGCATGCATAATATCCCAGTTAAGCTTTGTTCCTATATGCCGTGTGACTGGAAAATTGAGTATTATATTCAAGCCGGGGGGGGGGGGGGGAGGGTGTGGATGAAAGGGAAAAACCAAATGAAAATATTTTTTCTTTTCTCATTTAATGCATTGTGTGTGTGTGTGTGTGGGCAGAGAAGTTTATCCCATCAAAAGATACTAGTGCACCTTTTGGAGCCCAGATAGAATACTCTGAGCTTGTATGTGCACCATGCTGGAGTTTCAGGCAATCGTGATAGGGCATCCCCTGTTTTTCCTTGGGGGGAGACTAATAATGTCTCATGTTTTATTTTTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGGCAATCGTGATAGGGC
59.89
AGCAGACAACTAGGTAAGCGT
59.11
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCACCATGCTGGAGTTTCA
60.18
AGCAGACAACTAGGTAAGCGT
59.11
157
PCR template sequence:
AGCTTGTATGTGCACCATGCTGGAGTTTCAGGCAATCGTGATAGGGCATCCCCTGTTTTTCCTTGGGGGGAGACTAATAATGTCTCATGTTTTATTTTTCGTATTTAATGTGTTTTTATTCCCCCACGTAGTCTATTAAAATAGACACGCTTACCTAGTTGTCTGCTCATTATTTGTTTATGCTCAAACTTATCCTGTCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-18a-5p(1), mmu-miR-709(1), mmu-miR-381-3p(1), mmu-miR-466d-3p(1), mmu-miR-325-3p(1), mmu-miR-369-3p(1), mmu-miR-466b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTTTTATTTTTCGTATTTAATGTGT
siRNA sets
AAATACGAAAAATAAAACA, ATTAAATACGAAAAATAAA, TTAAATACGAAAAATAAAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIPTPRM_785_ORF_5
1.0219
-0.399640454
0.016943105
132
ORF sequence:
ATGTGCACCATGCTGGAGTTTCAGGCAATCGTGATAGGGCATCCCCTGTTTTTCCTTGGGGGGAGACTAATAATGTCTCATGTTTTATTTTTCGTATTTAATGTGTTTTTATTCCCCCACGTAGTCTATTAA
Peptide sequence:
MCTMLEFQAIVIGHPLFFLGGRLIMSHVLFFVFNVFLFPHVVY
IRESfinder result
IRESfinder score
0.843352112
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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