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mmu_circItpkc_696
Basic information of circular RNA
PanCircBase ID:
mmu_circItpkc_696
mm39_Chr. Position ID:
chr7|26911736|26919127|-
Gene name:
Itpkc
Transcript:
ENSMUST00000003850.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,648,2064,4640,7288
Genomic length:
7391
Exon/intron sizes in nt:
7,21,02,20,52,14,103
Flanking exon/introns:
chr7:26907869-26911736|chr7:26919127-26926775
Splice length:
696
Other database IDs:
circAtlas: hsa-ITPKC_0006, CIRCpedia: HSA_CIRCpedia_177070
Human Ortholog IDs:
Mature spliced Sequence:
AGCAAGCCCTGGAAGAAGCTGAAGACAGTTCTGAAGTACTCGCCCTTCGTGGTCTCCTTCCATAAGCACTACTATCCCTGGGTCCAGCTTTCCGGACACGCTGGGAACTTCCAGGCCGGTGAGGATGGTCGGATTCTGAAACGTTTCTGTCAGTGTGAGCAGCGCAGCCTGGAGCTGCTGATGGGAGACCCCCTGCGGCCTTTTGTGCCTGCTTATTATGGCATGGTGCAGCGGGATGGCCAGGCCTTCAACCAGATGGAAGATCTCCTGGCAGACTTTGAGGGCCCCTCTATCATGGACTGCAAGATGGGCAGCAGGACCTACCTGGAAGAGGAGCTGGTGAAGGCCAGGGAACGACCCAAGCCCCGGAAGGATATGTATGAGAAGATGGTGGCAGTGGACCCCGGGGCTCCCACCCCAGAAGAGCATGCTCAGGGTGCCATCACGAAGCCCCGATACATGCAGTGGAGGGAGACCCTGAGTTCAACTTCCACGCTGGGCTTCCGGATTGAAGGCATCAAGAAGGCTGATGGGACCTGCAACACCAACTTCAAGAAGACACAGGCTCTGGAGCAGGTGACAAAGGTGTTAGAAGACTTTGTGAATGGGGACCTTGGAATCCTAAGAAAGTACGTGGCGCGACTGGAAGACCTCCGAGAGACTCTGGAAAATTCTCCCTTCTTCAAGACCCACGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAAGAAAGTACGTGGCGCGA
59.76
AAGCTGGACCCAGGGATAGT
59.96
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTAAGAAAGTACGTGGCGC
59
AAGCTGGACCCAGGGATAGT
59.96
166
PCR template sequence:
CTTTGTGAATGGGGACCTTGGAATCCTAAGAAAGTACGTGGCGCGACTGGAAGACCTCCGAGAGACTCTGGAAAATTCTCCCTTCTTCAAGACCCACGAGAGCAAGCCCTGGAAGAAGCTGAAGACAGTTCTGAAGTACTCGCCCTTCGTGGTCTCCTTCCATAAGCACTACTATCCCTGGGTCCAGCTTTCCGGACACG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-320-3p(1), mmu-miR-23a-3p(1), mmu-miR-214-3p(1), mmu-miR-431-5p(1), mmu-miR-351-5p(1), mmu-miR-382-3p(1), mmu-miR-183-5p(1), mmu-miR-324-3p(1), mmu-miR-705(1), mmu-miR-532-5p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAGACCCACGAGAGCAAGCCCTGGA
siRNA sets
CAGGGCTTGCTCTCGTGGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCITPKC_696_ORF_1
1.2162
0.528752082
0.999627194
1212
ORF sequence:
ATGGGAGACCCCCTGCGGCCTTTTGTGCCTGCTTATTATGGCATGGTGCAGCGGGATGGCCAGGCCTTCAACCAGATGGAAGATCTCCTGGCAGACTTTGAGGGCCCCTCTATCATGGACTGCAAGATGGGCAGCAGGACCTACCTGGAAGAGGAGCTGGTGAAGGCCAGGGAACGACCCAAGCCCCGGAAGGATATGTATGAGAAGATGGTGGCAGTGGACCCCGGGGCTCCCACCCCAGAAGAGCATGCTCAGGGTGCCATCACGAAGCCCCGATACATGCAGTGGAGGGAGACCCTGAGTTCAACTTCCACGCTGGGCTTCCGGATTGAAGGCATCAAGAAGGCTGATGGGACCTGCAACACCAACTTCAAGAAGACACAGGCTCTGGAGCAGGTGACAAAGGTGTTAGAAGACTTTGTGAATGGGGACCTTGGAATCCTAAGAAAGTACGTGGCGCGACTGGAAGACCTCCGAGAGACTCTGGAAAATTCTCCCTTCTTCAAGACCCACGAGAGCAAGCCCTGGAAGAAGCTGAAGACAGTTCTGAAGTACTCGCCCTTCGTGGTCTCCTTCCATAAGCACTACTATCCCTGGGTCCAGCTTTCCGGACACGCTGGGAACTTCCAGGCCGGTGAGGATGGTCGGATTCTGAAACGTTTCTGTCAGTGTGAGCAGCGCAGCCTGGAGCTGCTGATGGGAGACCCCCTGCGGCCTTTTGTGCCTGCTTATTATGGCATGGTGCAGCGGGATGGCCAGGCCTTCAACCAGATGGAAGATCTCCTGGCAGACTTTGAGGGCCCCTCTATCATGGACTGCAAGATGGGCAGCAGGACCTACCTGGAAGAGGAGCTGGTGAAGGCCAGGGAACGACCCAAGCCCCGGAAGGATATGTATGAGAAGATGGTGGCAGTGGACCCCGGGGCTCCCACCCCAGAAGAGCATGCTCAGGGTGCCATCACGAAGCCCCGATACATGCAGTGGAGGGAGACCCTGAGTTCAACTTCCACGCTGGGCTTCCGGATTGAAGGCATCAAGAAGGCTGATGGGACCTGCAACACCAACTTCAAGAAGACACAGGCTCTGGAGCAGGTGACAAAGGTGTTAGAAGACTTTGTGAATGGGGACCTTGGAATCCTAAGAAAGTACGTGGCGCGACTGGAAGACCTCCGAGAGACTCTGGAAAATTCTCCCTTCTTCAAGACCCACGAG
Peptide sequence:
MGDPLRPFVPAYYGMVQRDGQAFNQMEDLLADFEGPSIMDCKMGSRTYLEEELVKARERPKPRKDMYEKMVAVDPGAPTPEEHAQGAITKPRYMQWRETLSSTSTLGFRIEGIKKADGTCNTNFKKTQALEQVTKVLEDFVNGDLGILRKYVARLEDLRETLENSPFFKTHESKPWKKLKTVLKYSPFVVSFHKHYYPWVQLSGHAGNFQAGEDGRILKRFCQCEQRSLELLMGDPLRPFVPAYYGMVQRDGQAFNQMEDLLADFEGPSIMDCKMGSRTYLEEELVKARERPKPRKDMYEKMVAVDPGAPTPEEHAQGAITKPRYMQWRETLSSTSTLGFRIEGIKKADGTCNTNFKKTQALEQVTKVLEDFVNGDLGILRKYVARLEDLRETLENSPFFKTHE
IRESfinder result
IRESfinder score
0.317962834
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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