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mmu_circPtprn2_780

Basic information of circular RNA
PanCircBase ID:

mmu_circPtprn2_780

mm39_Chr. Position ID:

chr12|116544018|116822811|+

Gene name:

Ptprn2

Transcript:

ENSMUST00000189009.7

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

5

Exon/intron indexes:

2,3,4,5,6

Exon/intron offsets:

0,141684,243918,260845,278444

Genomic length:

278793

Exon/intron sizes in nt:

5,11,14,10,31,63,349

Flanking exon/introns:

chr12:116449593-116544018|chr12:116822811-116835555

Splice length:

780

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GATGCTTGTTTGAGGATGGCTTGTGTGGATCACTGGAGACCTGTGTGAACGATGGTGTGTTTGGAAGATGTCAAAAGGTTCCGGTGATGGACACTTACCGATATGAGGTACCACCAGGAGCCCTGCTGCACCTGAAGGTCACCTTACAGAAGCTCTCCCGTACAGGTTTCACGTGGCAAGATGACTATACCCAGCGTGTGATTGCCCAGGAGCTTGCAAACCTCCCCAAGGCCTACCTATGGCATGGGGAAGCGTCCGGCCCAGCCAGGTCCTTACAACAGAATGCTGACAATGAAAAATGGTTCAGTCTGGAGAGGGAGGTGGCCCTGGCCAAGACCCTTCGGCGCTATCTGCCCTACCTGGAGCTTCTGTCCCAGACCCCAACAGCAAATGCACACTCTAGGATAGACCATGAGACTCGTCCAGCCAAGGGTGAAGACTCTTCCCCTGAGAACATCCTGACCTACGTGGCCCACACATCAGCACTGACCTATCCTCCTGCAACCCGGGCCAAGTATCCTGATAACCTTCTGCGGCCCTTTAGCCGGCTCCAGCCAGATGAGCTCAGCCCCAAGGTAGACGGTGACATAGACAAACAGAAGCTGATTGCAGCACTGGGCGCCTACACTGCTCAGAGGCTTCCTGGAGAAAATGACCCAGAGCCACGGTACCTTGTACATGGTTCCGCGAGAGCACCAAGGCCATTCTCAGCAACTGCTTTGTCTCAGAGATGGCCTCCACCTCCTGGAGACGCCAAAGACTCCCCGAGTATGGATGATG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TGTCTCAGAGATGGCCTCCA

59.96

GTGTCCATCACCGGAACCTT

59.96

154

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

ACCAAGGCCATTCTCAGCAA

59.89

GTGTCCATCACCGGAACCTT

59.96

180

PCR template sequence:

GGTTCCGCGAGAGCACCAAGGCCATTCTCAGCAACTGCTTTGTCTCAGAGATGGCCTCCACCTCCTGGAGACGCCAAAGACTCCCCGAGTATGGATGATGGATGCTTGTTTGAGGATGGCTTGTGTGGATCACTGGAGACCTGTGTGAACGATGGTGTGTTTGGAAGATGTCAAAAGGTTCCGGTGATGGACACTTACCG

Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs

6

Interacting miRNAs (#binding sites)

mmu-miR-326-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-335-3p(1), mmu-miR-574-5p(1)

siRNAs for circular RNA silencing
Junction sequence

AGTATGGATGATGGATGCTTGTTTGA

siRNA sets

AACAAGCATCCATCATCCA, CAAACAAGCATCCATCATC, AAACAAGCATCCATCATCC

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCPTPRN2_780_ORF_1

0.9367

0.320000956

0.999775259

1473

ORF sequence:

ATGGACACTTACCGATATGAGGTACCACCAGGAGCCCTGCTGCACCTGAAGGTCACCTTACAGAAGCTCTCCCGTACAGGTTTCACGTGGCAAGATGACTATACCCAGCGTGTGATTGCCCAGGAGCTTGCAAACCTCCCCAAGGCCTACCTATGGCATGGGGAAGCGTCCGGCCCAGCCAGGTCCTTACAACAGAATGCTGACAATGAAAAATGGTTCAGTCTGGAGAGGGAGGTGGCCCTGGCCAAGACCCTTCGGCGCTATCTGCCCTACCTGGAGCTTCTGTCCCAGACCCCAACAGCAAATGCACACTCTAGGATAGACCATGAGACTCGTCCAGCCAAGGGTGAAGACTCTTCCCCTGAGAACATCCTGACCTACGTGGCCCACACATCAGCACTGACCTATCCTCCTGCAACCCGGGCCAAGTATCCTGATAACCTTCTGCGGCCCTTTAGCCGGCTCCAGCCAGATGAGCTCAGCCCCAAGGTAGACGGTGACATAGACAAACAGAAGCTGATTGCAGCACTGGGCGCCTACACTGCTCAGAGGCTTCCTGGAGAAAATGACCCAGAGCCACGGTACCTTGTACATGGTTCCGCGAGAGCACCAAGGCCATTCTCAGCAACTGCTTTGTCTCAGAGATGGCCTCCACCTCCTGGAGACGCCAAAGACTCCCCGAGTATGGATGATGGATGCTTGTTTGAGGATGGCTTGTGTGGATCACTGGAGACCTGTGTGAACGATGGTGTGTTTGGAAGATGTCAAAAGGTTCCGGTGATGGACACTTACCGATATGAGGTACCACCAGGAGCCCTGCTGCACCTGAAGGTCACCTTACAGAAGCTCTCCCGTACAGGTTTCACGTGGCAAGATGACTATACCCAGCGTGTGATTGCCCAGGAGCTTGCAAACCTCCCCAAGGCCTACCTATGGCATGGGGAAGCGTCCGGCCCAGCCAGGTCCTTACAACAGAATGCTGACAATGAAAAATGGTTCAGTCTGGAGAGGGAGGTGGCCCTGGCCAAGACCCTTCGGCGCTATCTGCCCTACCTGGAGCTTCTGTCCCAGACCCCAACAGCAAATGCACACTCTAGGATAGACCATGAGACTCGTCCAGCCAAGGGTGAAGACTCTTCCCCTGAGAACATCCTGACCTACGTGGCCCACACATCAGCACTGACCTATCCTCCTGCAACCCGGGCCAAGTATCCTGATAACCTTCTGCGGCCCTTTAGCCGGCTCCAGCCAGATGAGCTCAGCCCCAAGGTAGACGGTGACATAGACAAACAGAAGCTGATTGCAGCACTGGGCGCCTACACTGCTCAGAGGCTTCCTGGAGAAAATGACCCAGAGCCACGGTACCTTGTACATGGTTCCGCGAGAGCACCAAGGCCATTCTCAGCAACTGCTTTGTCTCAGAGATGGCCTCCACCTCCTGGAGACGCCAAAGACTCCCCGAGTATGGATGAT

Peptide sequence:

MDTYRYEVPPGALLHLKVTLQKLSRTGFTWQDDYTQRVIAQELANLPKAYLWHGEASGPARSLQQNADNEKWFSLEREVALAKTLRRYLPYLELLSQTPTANAHSRIDHETRPAKGEDSSPENILTYVAHTSALTYPPATRAKYPDNLLRPFSRLQPDELSPKVDGDIDKQKLIAALGAYTAQRLPGENDPEPRYLVHGSARAPRPFSATALSQRWPPPPGDAKDSPSMDDGCLFEDGLCGSLETCVNDGVFGRCQKVPVMDTYRYEVPPGALLHLKVTLQKLSRTGFTWQDDYTQRVIAQELANLPKAYLWHGEASGPARSLQQNADNEKWFSLEREVALAKTLRRYLPYLELLSQTPTANAHSRIDHETRPAKGEDSSPENILTYVAHTSALTYPPATRAKYPDNLLRPFSRLQPDELSPKVDGDIDKQKLIAALGAYTAQRLPGENDPEPRYLVHGSARAPRPFSATALSQRWPPPPGDAKDSPSMDD

IRESfinder result

IRESfinder score

0.335978314

IRES/non IRES

non-IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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Institute of Life sciences, Bhubaneswar, India

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