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mmu_circPnpla8_963
Basic information of circular RNA
PanCircBase ID:
mmu_circPnpla8_963
mm39_Chr. Position ID:
chr12|44330093|44342852|+
Gene name:
Pnpla8
Transcript:
ENSMUST00000122902.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
5,6,7,8,9
Exon/intron offsets:
0,482,4860,7255,12587
Genomic length:
12759
Exon/intron sizes in nt:
3,94,15,01,52,95,172
Flanking exon/introns:
chr12:44301556-44330093|chr12:44342852-44346016
Splice length:
963
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CAAGGGAAAAATGTCTCAAACAAAGGAAGATAAACAGCTTCAGGACAAGCCAGACCTTGAAGAAAGGAAATCCAGTTCTCCAGGCCCTGACACCGTGGCAGACAGGCCAGACTCGGAATCTCCCCTAGAAGTTAAAGACAAACTTTCCAGCCCGACCCAGATGCCTGAGGCTCACCCAGTGTCTGCAAAACAAAGTATTGCTAACTTCCTTTCTCGTCCCACTGAAGGCGTACAAGCCTTAGTCGGTGGTTACATTGGTGGACTTGTACCCAAATTAAAGTCTGATCCCAAGAGTCCGCCCGAAGAACAGGAAGTGTCTGCTAAAACAGAGCAGGCTGTTAACAAAGACAAGAAGGCAGAGGAGAAAAAGCGTGTGCTACTTCAGCAAGAAAAGATTATTGCAAGAGTGAGTATTGATAACAGAACTCGAGCCTTAGTTCAGGCCTTAAGAAGAACAGCCGACCCAAAGCTCTGTATTACTAGGGTTGAAGAACTGACTTTTCATCTTCTAGAATTTCCTGAAGGAAAAGGAGTGGCTATCAAGGAAAAAATTATTCCATATTTATTACGGCTGAGACAAGTTAAGGATGAAACTCTTCAGGCTGCAGTTAGAGAAATTTTGGCTTTAATTGGTTATGTAGATCCAGTGAAAGGCAGAGGAATCCGAATCCTCACCATTGATGGTGGAGGAACAAGAGGTGTGGTTGCTCTCCAGACTCTGAGGAAGTTGGTTGAACTTACTCAGAAGCCGATTCATCAGCTTTTTGATTACATCTGTGGAGTAAGCACAGGGGCCATATTAGCATTTATGCTGGGATTGTTTCACATGCCGCTGGATGAATGTGAGGAACTCTATCGAAAGTTGGGCTCAGATGTGTTCACACAGAATGTCATTGTCGGGACCGTCAAAATGAGTTGGAGCCATGCGTTTTATGACAGTAACACGTGGGAAAAGATCCTCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGTCATTGTCGGGACCGTC
60.11
GGGCCTGGAGAACTGGATTT
59.67
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCATTGTCGGGACCGTCAA
60.32
GGGCCTGGAGAACTGGATTT
59.67
161
PCR template sequence:
TGGGCTCAGATGTGTTCACACAGAATGTCATTGTCGGGACCGTCAAAATGAGTTGGAGCCATGCGTTTTATGACAGTAACACGTGGGAAAAGATCCTCAACAAGGGAAAAATGTCTCAAACAAAGGAAGATAAACAGCTTCAGGACAAGCCAGACCTTGAAGAAAGGAAATCCAGTTCTCCAGGCCCTGACACCGTGGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(1), mmu-miR-223-3p(1), mmu-miR-146a-5p(1), mmu-miR-320-3p(1), mmu-miR-181b-5p(1), mmu-miR-676-3p(1), mmu-miR-411-3p(1), mmu-miR-218-5p(1), mmu-miR-383-5p(1), mmu-miR-3061-5p(1), mmu-miR-146b-5p(1), mmu-miR-338-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAAGATCCTCAACAAGGGAAAAATG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPNPLA8_963_ORF_1
1.0317
0.132269599
0.999983018
1914
ORF sequence:
ATGTCTCAAACAAAGGAAGATAAACAGCTTCAGGACAAGCCAGACCTTGAAGAAAGGAAATCCAGTTCTCCAGGCCCTGACACCGTGGCAGACAGGCCAGACTCGGAATCTCCCCTAGAAGTTAAAGACAAACTTTCCAGCCCGACCCAGATGCCTGAGGCTCACCCAGTGTCTGCAAAACAAAGTATTGCTAACTTCCTTTCTCGTCCCACTGAAGGCGTACAAGCCTTAGTCGGTGGTTACATTGGTGGACTTGTACCCAAATTAAAGTCTGATCCCAAGAGTCCGCCCGAAGAACAGGAAGTGTCTGCTAAAACAGAGCAGGCTGTTAACAAAGACAAGAAGGCAGAGGAGAAAAAGCGTGTGCTACTTCAGCAAGAAAAGATTATTGCAAGAGTGAGTATTGATAACAGAACTCGAGCCTTAGTTCAGGCCTTAAGAAGAACAGCCGACCCAAAGCTCTGTATTACTAGGGTTGAAGAACTGACTTTTCATCTTCTAGAATTTCCTGAAGGAAAAGGAGTGGCTATCAAGGAAAAAATTATTCCATATTTATTACGGCTGAGACAAGTTAAGGATGAAACTCTTCAGGCTGCAGTTAGAGAAATTTTGGCTTTAATTGGTTATGTAGATCCAGTGAAAGGCAGAGGAATCCGAATCCTCACCATTGATGGTGGAGGAACAAGAGGTGTGGTTGCTCTCCAGACTCTGAGGAAGTTGGTTGAACTTACTCAGAAGCCGATTCATCAGCTTTTTGATTACATCTGTGGAGTAAGCACAGGGGCCATATTAGCATTTATGCTGGGATTGTTTCACATGCCGCTGGATGAATGTGAGGAACTCTATCGAAAGTTGGGCTCAGATGTGTTCACACAGAATGTCATTGTCGGGACCGTCAAAATGAGTTGGAGCCATGCGTTTTATGACAGTAACACGTGGGAAAAGATCCTCAACAAGGGAAAAATGTCTCAAACAAAGGAAGATAAACAGCTTCAGGACAAGCCAGACCTTGAAGAAAGGAAATCCAGTTCTCCAGGCCCTGACACCGTGGCAGACAGGCCAGACTCGGAATCTCCCCTAGAAGTTAAAGACAAACTTTCCAGCCCGACCCAGATGCCTGAGGCTCACCCAGTGTCTGCAAAACAAAGTATTGCTAACTTCCTTTCTCGTCCCACTGAAGGCGTACAAGCCTTAGTCGGTGGTTACATTGGTGGACTTGTACCCAAATTAAAGTCTGATCCCAAGAGTCCGCCCGAAGAACAGGAAGTGTCTGCTAAAACAGAGCAGGCTGTTAACAAAGACAAGAAGGCAGAGGAGAAAAAGCGTGTGCTACTTCAGCAAGAAAAGATTATTGCAAGAGTGAGTATTGATAACAGAACTCGAGCCTTAGTTCAGGCCTTAAGAAGAACAGCCGACCCAAAGCTCTGTATTACTAGGGTTGAAGAACTGACTTTTCATCTTCTAGAATTTCCTGAAGGAAAAGGAGTGGCTATCAAGGAAAAAATTATTCCATATTTATTACGGCTGAGACAAGTTAAGGATGAAACTCTTCAGGCTGCAGTTAGAGAAATTTTGGCTTTAATTGGTTATGTAGATCCAGTGAAAGGCAGAGGAATCCGAATCCTCACCATTGATGGTGGAGGAACAAGAGGTGTGGTTGCTCTCCAGACTCTGAGGAAGTTGGTTGAACTTACTCAGAAGCCGATTCATCAGCTTTTTGATTACATCTGTGGAGTAAGCACAGGGGCCATATTAGCATTTATGCTGGGATTGTTTCACATGCCGCTGGATGAATGTGAGGAACTCTATCGAAAGTTGGGCTCAGATGTGTTCACACAGAATGTCATTGTCGGGACCGTCAAAATGAGTTGGAGCCATGCGTTTTATGACAGTAACACGTGGGAAAAGATCCTC
Peptide sequence:
MSQTKEDKQLQDKPDLEERKSSSPGPDTVADRPDSESPLEVKDKLSSPTQMPEAHPVSAKQSIANFLSRPTEGVQALVGGYIGGLVPKLKSDPKSPPEEQEVSAKTEQAVNKDKKAEEKKRVLLQQEKIIARVSIDNRTRALVQALRRTADPKLCITRVEELTFHLLEFPEGKGVAIKEKIIPYLLRLRQVKDETLQAAVREILALIGYVDPVKGRGIRILTIDGGGTRGVVALQTLRKLVELTQKPIHQLFDYICGVSTGAILAFMLGLFHMPLDECEELYRKLGSDVFTQNVIVGTVKMSWSHAFYDSNTWEKILNKGKMSQTKEDKQLQDKPDLEERKSSSPGPDTVADRPDSESPLEVKDKLSSPTQMPEAHPVSAKQSIANFLSRPTEGVQALVGGYIGGLVPKLKSDPKSPPEEQEVSAKTEQAVNKDKKAEEKKRVLLQQEKIIARVSIDNRTRALVQALRRTADPKLCITRVEELTFHLLEFPEGKGVAIKEKIIPYLLRLRQVKDETLQAAVREILALIGYVDPVKGRGIRILTIDGGGTRGVVALQTLRKLVELTQKPIHQLFDYICGVSTGAILAFMLGLFHMPLDECEELYRKLGSDVFTQNVIVGTVKMSWSHAFYDSNTWEKIL
IRESfinder result
IRESfinder score
0.589064318
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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