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mmu_ciPtprd_3174
Basic information of circular RNA
PanCircBase ID:
mmu_ciPtprd_3174
mm39_Chr. Position ID:
chr4|75869135|75872309|-
Gene name:
Ptprd
Transcript:
ENSMUST00000107289.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
33
Exon/intron offsets:
0
Genomic length:
3174
Exon/intron sizes in nt:
3174
Flanking exon/introns:
chr4:75869042-75872309
Splice length:
3174
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTTCAGCTCATAGTTAGCTAGAAATTAGGGTTACATATACTCCTCTGGGAGAAACATTTTCTAATAACCATTCTCAAAAGGAAAAGAAATCGCGCATTGTAGATGACTTTAAAGGAAAGGAATCTGTAACATCCCCTTTATCTGGGAAGTATTTACATAAGCCCAGGCTTGGCTTCCCTTCAAGTGTAACACCTGGAAGCCCAGCTTTGGGGAAGGCAGTGCGGGCTTGTGTTGGGAAGTGTGTACTGATTGGTTGGCTGCACTTAAGTTCACCTTCTCAGCTCATTCTCACTGGAGAGCTTTTGATTTCTTCATTACTTAAGGCTGTAAATGTGGTGTTGGTTTTACAGTCCTTGAGGTCATATGGGCTTGTAGGTTAATTTGGTATGACTTTAAAACTGCAGAGCAAGTGGCATTCCTTGGAAGGCTCTGACAAGCCTTGCACATTCTAATTTGATTCCTGGCATCGTCTGTTCCTCCATGTGCTAATGTGTCTGTCCACGAGAGCTGTGAACTCACAACCCTTGTTGGCTAATTTCCATTTGCATTTCTCACAAAGATTGCTGAGTCCAAGGCTCAGCCCTAATGTAAGAGGTTCTACACATAAACTTTAATATCTTTGCCATTAGCCACTCTCAAACCATGATTGCAAACACATCTTAGGGAGACTGGGTCAGTTCAAAGCTCCGCTTTAGTTTTAGAACTGCCATAGTGGGTGGGTTGACTAAAACTCCAGGAGACAATATGTAGTTAGTTGATCCATTAGTTTTTCCTGGAAAGAAGCTTTCACTCAGTTCATATTTGTAGATTGTCTACTAATAAGCCTAGCCCTGGCTATGACACAGAGACAGAGGAGACAAAGACAGAATATGATTCACAGGAGGACAAGACTTGTTAATCCTAGAAAGTGGTATATCAAATACTCTGAATGTGACTACTTCAGGGCTATCATGATACAAGGTCTCATTTTTTAATTGTCCAAGTAAGCACTCCCTGATGCTTGCTACTATCCCTTCAGTATAAGTCAAAGACGTATGTTCCTTAAACGTAAATTTCCTAGCTATTTCTGGTAATTGAAAGGAGAATACAGGTTTAACCCACGAGGAACACACATTTGACCTAGCTCCAAGTTAAGCCTAATAACATTGAGAGAAGAAAGAGGGGAGCAGGTACGTGTTCAGATCAGTTTGAAACGACTCTCTGTGCTTAGCTGCCAGAGGCCTTGTTGTGTATGCTGCCAGGGTGCTGGTGATCTCCGGTTCTGAGTTCAGAAAGCCAGTTGGCCCTTGAAAATGCAGCCTTGTTAAGCAACCAACCTTTAAACAATCAGATGGTCTCTCTCCAAATAGTAAATGTTTATGCATCTGACCTGTTTTTGTCCTTCCTAGTGACTAAGGACAAAAATGAAATCCCCAGGACACTCAGAGGACAGCTCTGCAATGTGTAGTTTCTGACCTTCCTCCCTTTACTATCTGAGAAAAAGAGGGAAATAAATCTACCCTCTACACTAACCATCTGCGAGTTACTGACTAGGCCAGATACTTCTTTTGCTCCTCTGTATCCTCGTGGAATATTTGTGCTGTTCTATTAACTCTCAGGCATGTACTCTGAACCACTAGGGTCCATGATGTGTACCCATGCTGAGTTAACCCATACACTCTTCTCTCCATTTGCCTGGGATTGAGTTATTTGTATAAATCTTACAAACATGCATGCCTGGTCCATAAGACTCTTAAAAGGAAAGATTAATTCCCAAGAATGTGAAGCAGGGTGCCACTGGGAGTAGCTCTTCAGGTCGGACCAATCGCAGTAAACATGGGTTACCCTGATGTGTCAGAGCAGGAATTCCTGTTATCTATGAGTACAGCATCTCTTCTGCTACTGTTGTACTTCAAACCATTCCAAGAAGAGTCAGAAGTAATTCATGACCTTCTATTATTAATGTGGAACTTCTTGAAAAGTTTTATATACAGAACTTAGAAATACCAGGTAAATGCTTCAGATATCCACCATGAATTTAGTGTTTGTGGACTTTGTCATGTGTACAAAACATGATAGTAAAAGAAGAACACCTACTTTGTGGATTATCATATTTTAGATATGCCTTGTTTTCTTAGAATTTTGGAGTTGTCTTTGTATATTATTTAATTCCTGAAGTTAGTCAGGAAGAAACCTCTGATTTAAAGAAGGCGGGGGCAGTGGAACAATACTTGCAAATAATCATAATCACTTTGGATTCTGTATTGGTTCCTTTTTCTGTTTCTGTGATTAAAATACTGACCAAAAGCAAGTTGAAAGTAAAGATTTACTTGGTTACAGGTTCATTATCAAGGGAAATCAGGGAAAGAGCTCAAAGCAGGAACATAGAGGCAGGAACTGAAGTAGAGACCATAGAGGAACACTGCTTGCTGTGTTGCTCTCCCATGTCTCTCTAATTCCTCTCTATTTCTTATATCAGCCAGGAGCACCCATCTAGGTGTGGCACTGCCACTGTTGGCTGCACCCTCCCATATCAATCACTAATCAAGAAAATGCTCACTCATGTGCACACAGGACAGTCTGATTGAAACAATTCTTTAATTTAGGGTTCCTTCTCCCAGAGACTCTGATTTGTGTCAGGTTGACAAAAACAAACCAGCACACTGCCCTTAAGCTGGAATTTAAGCATCACTACATGGTTCATGCTGTGTCTCACATGTGGCTTGAAAATGTGTAACTCAGAGACATGGTGGGGCAGCCAAGTCAACTACCTGGTTTATGTTAGATCCTTTAAATGTTGCCATTTGTCATTTACGGTACTAGAAATATGCATGGCTGATGTGACAACATGTCAATGTGACAACAAAAATTCTCTGATCTAGGTGACATGCCTGCATACTACCTTCACACTCCTCCTGTGAAGAAGTCATTAGACTGAATATAATATTTGGGGAAATATTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTGTATTTGATTATCTCAAACTTTGAAGCTCAGAAGTGCTTCTGAAGAGGATAACTCAAATAGATTTGTAATTTAAATATGTATAAATGTTGACAGTGTAGGCAGTAAATAAGACACACACATAACAAAGTTTCCACTGGACACATTCCTAACTTTTTTCTTCTCTTTTTATTTATTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTTTCCACTGGACACATTCCT
59.56
TGCGCGATTTCTTTTCCTTTTG
58.95
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTTTCCACTGGACACATTCCT
59.56
TGCGCGATTTCTTTTCCTTT
56.92
151
PCR template sequence:
TGTATAAATGTTGACAGTGTAGGCAGTAAATAAGACACACACATAACAAAGTTTCCACTGGACACATTCCTAACTTTTTTCTTCTCTTTTTATTTATTGGGTAAGTTCAGCTCATAGTTAGCTAGAAATTAGGGTTACATATACTCCTCTGGGAGAAACATTTTCTAATAACCATTCTCAAAAGGAAAAGAAATCGCGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
32
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-16-5p(1), mmu-miR-103-3p(1), mmu-miR-221-3p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-122-5p(1), mmu-miR-298-5p(1), mmu-miR-196a-5p(1), mmu-miR-320-3p(1), mmu-miR-23a-3p(1), mmu-miR-381-3p(1), mmu-miR-433-3p(1), mmu-miR-324-3p(1), mmu-miR-34b-5p(1), mmu-miR-107-3p(1), mmu-miR-383-5p(1), mmu-miR-466d-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-1198-5p(1), mmu-miR-466p-5p(1), mmu-miR-673-5p(1), mmu-miR-335-3p(1), mmu-miR-669d-5p(1), mmu-miR-466b-3p(1), mmu-miR-670-5p(1), mmu-miR-574-5p(1), mmu-miR-296-3p(1), mmu-miR-181d-5p(1), mmu-miR-7a-1-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTTATTTATTGGGTAAGTTCAGCTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.838895781
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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