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mmu_circLpin2_1067
Basic information of circular RNA
PanCircBase ID:
mmu_circLpin2_1067
mm39_Chr. Position ID:
chr17|71529049|71540922|+
Gene name:
Lpin2
Transcript:
ENSMUST00000129635.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
3,4,5,6,7,8
Exon/intron offsets:
0,2885,7253,8217,9128,11773
Genomic length:
11873
Exon/intron sizes in nt:
96,302,108,124,337,100
Flanking exon/introns:
chr17:71522159-71529049|chr17:71540922-71544380
Splice length:
1067
Other database IDs:
circAtlas: mmu-Lpin2_0004
Human Ortholog IDs:
Mature spliced Sequence:
ATTGACATAGAAATCAATGGCAGTGCTGTGGATCTTCACATGAAATTGGGTGATAATGGGGAAGCCTTCTTTGTAGAGGAGACTGAAGAAGAATATGAAAAATTACCTGCTTATCTTGCCACCTCACCAATTCCCACTGAAGACCAGTTCTTTAAACATATTGAAACCCCTTTGGTGAAATCAAGTGGAAATGAAAGGCCAGCTCAGAGTTCAGACGTTTCTCACACCTTGGAATCAGAGGCAGTTTTCACTCAGAGTTCTGTGAAAAAGAAGAAACGAAGGAGAAAGAAGTGCAAACAGGACAATAGGAAGGAGGAGCAGGCAGCTTCCCCTGTTGCAGAAGATGTAGGTGATGTGGGTGTGAGCTCAGATGATGAGAAGAGAGCCCAGGCAGCAAGAGGATCTTCAAATGCTTCCTTAAAGGAAGAGGACTACAAGGAGCCTTCACTCTTCCATTCTGGGGATAACTACCCCTTATCTGATGGAGATTGGTCCCCATTAGAAACCACCTACCCTCAGGCTGTGTGCCCCAAGAGTGACTCTGAGCTGGAGGTGAAGCCATCTGAGAGCCTCCTCAGATCTGAGCCGCACATGGAGTGGACGTGGGGCGGGTTCCCAGAGTCCACCAAGGTCACCAAAAGAGAACGGTATGACTATCATCCAAGGACAGCTACGATTACACCATCAGAGAACACACATTTCAGGGTAATTCCCAGTGAAGACAGCCTCATAAGAGAAGTTGAAAAGGATGCTACTGTTGAAGATACTACCTGTACCATAGTGAAACCCAAACCTAGAGCCCTGTGTAAGCAACTGAGTGATGCAGCGTCTACTGAGCTTCCCGAATCACCTCTTGAAGCACCTCAGATTTCATCGTTATTAGATGCAGACCCTGTTCCCAGCCCATCAGCAGAGGCTCCCTCAGAACCCAAACCAGCTGCTAAAGACTCACCAACAAAAAAGAAAGGTGTTCACAAAAGAAGCCAGCACCAGGGACCTGATGACATTTACCTTGATGACTTAAAGGCTCTTGAGCCTGAAGTGGCGGCTCTCTATTTCCCTAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAAAGAAGCCAGCACCAGG
59.68
GGCTTCCCCATTATCACCCA
59.44
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAAAAGAAGCCAGCACCAGG
59.68
AGGCTTCCCCATTATCACCC
59.15
160
PCR template sequence:
GTGTTCACAAAAGAAGCCAGCACCAGGGACCTGATGACATTTACCTTGATGACTTAAAGGCTCTTGAGCCTGAAGTGGCGGCTCTCTATTTCCCTAAAAGATTGACATAGAAATCAATGGCAGTGCTGTGGATCTTCACATGAAATTGGGTGATAATGGGGAAGCCTTCTTTGTAGAGGAGACTGAAGAAGAATATGAAA
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-29b-2-5p(3), mmu-miR-31-5p(1), mmu-miR-196a-5p(1), mmu-miR-326-3p(1), mmu-miR-24-3p(1), mmu-miR-127-5p(1), mmu-miR-342-3p(1), mmu-miR-1187(1), mmu-miR-335-3p(1), mmu-miR-484(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTTCCCTAAAAGATTGACATAGAAA
siRNA sets
TATGTCAATCTTTTAGGGA, TTTCTATGTCAATCTTTTA, TTCTATGTCAATCTTTTAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLPIN2_1067_ORF_1
1.0821
0.16751395
0.992570092
1038
ORF sequence:
ATGAAATTGGGTGATAATGGGGAAGCCTTCTTTGTAGAGGAGACTGAAGAAGAATATGAAAAATTACCTGCTTATCTTGCCACCTCACCAATTCCCACTGAAGACCAGTTCTTTAAACATATTGAAACCCCTTTGGTGAAATCAAGTGGAAATGAAAGGCCAGCTCAGAGTTCAGACGTTTCTCACACCTTGGAATCAGAGGCAGTTTTCACTCAGAGTTCTGTGAAAAAGAAGAAACGAAGGAGAAAGAAGTGCAAACAGGACAATAGGAAGGAGGAGCAGGCAGCTTCCCCTGTTGCAGAAGATGTAGGTGATGTGGGTGTGAGCTCAGATGATGAGAAGAGAGCCCAGGCAGCAAGAGGATCTTCAAATGCTTCCTTAAAGGAAGAGGACTACAAGGAGCCTTCACTCTTCCATTCTGGGGATAACTACCCCTTATCTGATGGAGATTGGTCCCCATTAGAAACCACCTACCCTCAGGCTGTGTGCCCCAAGAGTGACTCTGAGCTGGAGGTGAAGCCATCTGAGAGCCTCCTCAGATCTGAGCCGCACATGGAGTGGACGTGGGGCGGGTTCCCAGAGTCCACCAAGGTCACCAAAAGAGAACGGTATGACTATCATCCAAGGACAGCTACGATTACACCATCAGAGAACACACATTTCAGGGTAATTCCCAGTGAAGACAGCCTCATAAGAGAAGTTGAAAAGGATGCTACTGTTGAAGATACTACCTGTACCATAGTGAAACCCAAACCTAGAGCCCTGTGTAAGCAACTGAGTGATGCAGCGTCTACTGAGCTTCCCGAATCACCTCTTGAAGCACCTCAGATTTCATCGTTATTAGATGCAGACCCTGTTCCCAGCCCATCAGCAGAGGCTCCCTCAGAACCCAAACCAGCTGCTAAAGACTCACCAACAAAAAAGAAAGGTGTTCACAAAAGAAGCCAGCACCAGGGACCTGATGACATTTACCTTGATGACTTAAAGGCTCTTGAGCCTGAAGTGGCGGCTCTCTATTTCCCTAAAAGATTGACATAG
Peptide sequence:
MKLGDNGEAFFVEETEEEYEKLPAYLATSPIPTEDQFFKHIETPLVKSSGNERPAQSSDVSHTLESEAVFTQSSVKKKKRRRKKCKQDNRKEEQAASPVAEDVGDVGVSSDDEKRAQAARGSSNASLKEEDYKEPSLFHSGDNYPLSDGDWSPLETTYPQAVCPKSDSELEVKPSESLLRSEPHMEWTWGGFPESTKVTKRERYDYHPRTATITPSENTHFRVIPSEDSLIREVEKDATVEDTTCTIVKPKPRALCKQLSDAASTELPESPLEAPQISSLLDADPVPSPSAEAPSEPKPAAKDSPTKKKGVHKRSQHQGPDDIYLDDLKALEPEVAALYFPKRLT
IRESfinder result
IRESfinder score
0.617188367
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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