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mmu_circPnpla7_785
Basic information of circular RNA
PanCircBase ID:
mmu_circPnpla7_785
mm39_Chr. Position ID:
chr2|24892626|24906642|+
Gene name:
Pnpla7
Transcript:
ENSMUST00000045295.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
13,14,15,16,17,18
Exon/intron offsets:
0,274,8099,8891,12535,13892
Genomic length:
14016
Exon/intron sizes in nt:
10,11,44,78,20,61,32,100
Flanking exon/introns:
chr2:24888771-24892626|chr2:24906642-24909415
Splice length:
785
Other database IDs:
CIRCpedia: MMU_CIRCpedia_37589
Human Ortholog IDs:
Mature spliced Sequence:
AAAGCCATGAGGGAGCCACCTCAGACCTGGGGATGGCATACAACCGTGCCAGGATTTTGCCACACTCTGATGAGCAACTTGGGAACTCTTTGGCCAGCAAGTCCAAGAAAAGTGTTGTCGCAGAGACCCCCTCTGCCATCTTCCACTACTCAGAAAATTTCAGGGATGAGACTGGGGCCTGTGGGAAGACAGATGCTATCTTCAGAGCTGCCACAAAGGACCTCCTTACCCTGATGAAGCTAGATGACCCATCCCTGTTGGATGGCCGGGTGGCATTTCTTCATGTTCCTGCAGGCACCTTAGTGTCAAAACAGGGAGATCAGGATGTCAATATTTTGTTTGTGGTCTCGGGGATGCTGCATGTGTACCAGCAAAAGATTGACAGCTTGGAGGATACTTGCCTGTTCCTCACACATCCCGGGGAGATGGTGGGTCAGCTGGCGGTGCTCACTGGAGAACCCCTAATGTTCACCATCAGAGCCAACCGAGACTGCAGCTTTTTGTCCATCTCGAAGGCCCACTTCTATGAGATCATGAGGAAACGGCCGGATGTTGTCCTGGGCGTGGCACACACAGTTGTGAAGAGGATGTCATCCTTTGTACGGCAGATTGATTTTGCTCTAGACTGGATGGAAGTAGAGGCTGGACGTGCCATATACAGGCAAGGAGACAAGTCTGACTGCACATACATCGTTCTCAGTGGCAGGCTGCGTTCTGTCATCCGAAAAGATGATGGGAAAAAACGCCTGGCAGGGGAATATGGCCGAGGAGACCTTGTTGGTGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACATCGTTCTCAGTGGCAGG
60.04
GAGTGTGGCAAAATCCTGGC
59.76
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACATCGTTCTCAGTGGCAGG
60.04
GTTGTATGCCATCCCCAGGT
59.74
142
PCR template sequence:
ATACATCGTTCTCAGTGGCAGGCTGCGTTCTGTCATCCGAAAAGATGATGGGAAAAAACGCCTGGCAGGGGAATATGGCCGAGGAGACCTTGTTGGTGTGAAAGCCATGAGGGAGCCACCTCAGACCTGGGGATGGCATACAACCGTGCCAGGATTTTGCCACACTCTGATGAGCAACTTGGGAACTCTTTGGCCAGCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-31-5p(1), mmu-miR-18a-5p(1), mmu-miR-298-5p(1), mmu-miR-324-5p(1), mmu-miR-297a-5p(1), mmu-miR-107-3p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-484(1), mmu-miR-452-3p(1), mmu-miR-670-5p(1), mmu-miR-697(1), mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTTGTTGGTGTGAAAGCCATGAGGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPNPLA7_785_ORF_1
0.8744
0.188205536
0.985772658
987
ORF sequence:
ATGGCATACAACCGTGCCAGGATTTTGCCACACTCTGATGAGCAACTTGGGAACTCTTTGGCCAGCAAGTCCAAGAAAAGTGTTGTCGCAGAGACCCCCTCTGCCATCTTCCACTACTCAGAAAATTTCAGGGATGAGACTGGGGCCTGTGGGAAGACAGATGCTATCTTCAGAGCTGCCACAAAGGACCTCCTTACCCTGATGAAGCTAGATGACCCATCCCTGTTGGATGGCCGGGTGGCATTTCTTCATGTTCCTGCAGGCACCTTAGTGTCAAAACAGGGAGATCAGGATGTCAATATTTTGTTTGTGGTCTCGGGGATGCTGCATGTGTACCAGCAAAAGATTGACAGCTTGGAGGATACTTGCCTGTTCCTCACACATCCCGGGGAGATGGTGGGTCAGCTGGCGGTGCTCACTGGAGAACCCCTAATGTTCACCATCAGAGCCAACCGAGACTGCAGCTTTTTGTCCATCTCGAAGGCCCACTTCTATGAGATCATGAGGAAACGGCCGGATGTTGTCCTGGGCGTGGCACACACAGTTGTGAAGAGGATGTCATCCTTTGTACGGCAGATTGATTTTGCTCTAGACTGGATGGAAGTAGAGGCTGGACGTGCCATATACAGGCAAGGAGACAAGTCTGACTGCACATACATCGTTCTCAGTGGCAGGCTGCGTTCTGTCATCCGAAAAGATGATGGGAAAAAACGCCTGGCAGGGGAATATGGCCGAGGAGACCTTGTTGGTGTGAAAGCCATGAGGGAGCCACCTCAGACCTGGGGATGGCATACAACCGTGCCAGGATTTTGCCACACTCTGATGAGCAACTTGGGAACTCTTTGGCCAGCAAGTCCAAGAAAAGTGTTGTCGCAGAGACCCCCTCTGCCATCTTCCACTACTCAGAAAATTTCAGGGATGAGACTGGGGCCTGTGGGAAGACAGATGCTATCTTCAGAGCTGCCACAAAGGACCTCCTTACCCTGA
Peptide sequence:
MAYNRARILPHSDEQLGNSLASKSKKSVVAETPSAIFHYSENFRDETGACGKTDAIFRAATKDLLTLMKLDDPSLLDGRVAFLHVPAGTLVSKQGDQDVNILFVVSGMLHVYQQKIDSLEDTCLFLTHPGEMVGQLAVLTGEPLMFTIRANRDCSFLSISKAHFYEIMRKRPDVVLGVAHTVVKRMSSFVRQIDFALDWMEVEAGRAIYRQGDKSDCTYIVLSGRLRSVIRKDDGKKRLAGEYGRGDLVGVKAMREPPQTWGWHTTVPGFCHTLMSNLGTLWPASPRKVLSQRPPLPSSTTQKISGMRLGPVGRQMLSSELPQRTSLP
IRESfinder result
IRESfinder score
0.361786904
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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