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mmu_circPrmt3_555
Basic information of circular RNA
PanCircBase ID:
mmu_circPrmt3_555
mm39_Chr. Position ID:
chr7|49441720|49476643|+
Gene name:
Prmt3
Transcript:
ENSMUST00000032715.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
8,9,10,11,12
Exon/intron offsets:
0,6333,14554,26059,34735
Genomic length:
34923
Exon/intron sizes in nt:
66,12,21,00,79,188
Flanking exon/introns:
chr7:49437122-49441720|chr7:49476643-49478691
Splice length:
555
Other database IDs:
circAtlas: mmu-Prmt3_0015
circAtlas: hsa-PRMT3_0018, CIRCpedia: HSA_CIRCpedia_175874
Human Ortholog IDs:
Mature spliced Sequence:
GACAAAGTACGCACAGAAAGTTACAGAGATTTCATATACCAAAATCCACACATCTTCAAAGATAAGGTTGTTCTGGATGTTGGGTGTGGAACTGGAATTCTCTCCATGTTTGCTGCCAAAGTTGGGGCAAAGAAAGTGATTGCAGTCGACCAGTCTGAAATCCTCTACCAGGCTATGGATATCATAAGACTAAATAAACTTGAAGATACCATTGTACTAATTAAAGGAAAGATTGAAGAAGTGAGTCTTCCTGTGGAAAAGGTGGATGTTATTATATCAGAGTGGATGGGCTATTTTCTTCTTTTTGAGTCGATGTTGGATTCTGTCCTTTATGCTAAGAGTAAATACTTGGCAAAAGGGGGATCGGTCTACCCTGACATTTGCACCATCAGCCTTGTAGCTGTGAGTGATGTGAGCAAGCACGCCGATAGAATTGCCTTCTGGGATGACGTCTATGGCTTCAACATGTCCTGCATGAAGAAAGCAGTTATACCGGAAGCTGTTGTGGAAGTTGTGGATCACAAGACTCTTATTTCAGACCCTTGTGATATCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGGAAGCTGTTGTGGAAGT
60.54
TTCCAGTTCCACACCCAACA
59.37
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCGGAAGCTGTTGTGGAAG
60.54
TTCCAGTTCCACACCCAACA
59.37
161
PCR template sequence:
TGGCTTCAACATGTCCTGCATGAAGAAAGCAGTTATACCGGAAGCTGTTGTGGAAGTTGTGGATCACAAGACTCTTATTTCAGACCCTTGTGATATCAAGGACAAAGTACGCACAGAAAGTTACAGAGATTTCATATACCAAAATCCACACATCTTCAAAGATAAGGTTGTTCTGGATGTTGGGTGTGGAACTGGAATTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-19b-3p(1), mmu-miR-19a-3p(1), mmu-miR-7a-5p(1), mmu-miR-138-5p(1), mmu-miR-185-5p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-1187(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGTGATATCAAGGACAAAGTACGCA
siRNA sets
CTTTGTCCTTGATATCACA, TACTTTGTCCTTGATATCA, ACTTTGTCCTTGATATCAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPRMT3_555_ORF_1
1.1533
0.185098048
0.992496668
1005
ORF sequence:
ATGTTTGCTGCCAAAGTTGGGGCAAAGAAAGTGATTGCAGTCGACCAGTCTGAAATCCTCTACCAGGCTATGGATATCATAAGACTAAATAAACTTGAAGATACCATTGTACTAATTAAAGGAAAGATTGAAGAAGTGAGTCTTCCTGTGGAAAAGGTGGATGTTATTATATCAGAGTGGATGGGCTATTTTCTTCTTTTTGAGTCGATGTTGGATTCTGTCCTTTATGCTAAGAGTAAATACTTGGCAAAAGGGGGATCGGTCTACCCTGACATTTGCACCATCAGCCTTGTAGCTGTGAGTGATGTGAGCAAGCACGCCGATAGAATTGCCTTCTGGGATGACGTCTATGGCTTCAACATGTCCTGCATGAAGAAAGCAGTTATACCGGAAGCTGTTGTGGAAGTTGTGGATCACAAGACTCTTATTTCAGACCCTTGTGATATCAAGGACAAAGTACGCACAGAAAGTTACAGAGATTTCATATACCAAAATCCACACATCTTCAAAGATAAGGTTGTTCTGGATGTTGGGTGTGGAACTGGAATTCTCTCCATGTTTGCTGCCAAAGTTGGGGCAAAGAAAGTGATTGCAGTCGACCAGTCTGAAATCCTCTACCAGGCTATGGATATCATAAGACTAAATAAACTTGAAGATACCATTGTACTAATTAAAGGAAAGATTGAAGAAGTGAGTCTTCCTGTGGAAAAGGTGGATGTTATTATATCAGAGTGGATGGGCTATTTTCTTCTTTTTGAGTCGATGTTGGATTCTGTCCTTTATGCTAAGAGTAAATACTTGGCAAAAGGGGGATCGGTCTACCCTGACATTTGCACCATCAGCCTTGTAGCTGTGAGTGATGTGAGCAAGCACGCCGATAGAATTGCCTTCTGGGATGACGTCTATGGCTTCAACATGTCCTGCATGAAGAAAGCAGTTATACCGGAAGCTGTTGTGGAAGTTGTGGATCACAAGACTCTTATTTCAGACCCTTGTGATATCAAG
Peptide sequence:
MFAAKVGAKKVIAVDQSEILYQAMDIIRLNKLEDTIVLIKGKIEEVSLPVEKVDVIISEWMGYFLLFESMLDSVLYAKSKYLAKGGSVYPDICTISLVAVSDVSKHADRIAFWDDVYGFNMSCMKKAVIPEAVVEVVDHKTLISDPCDIKDKVRTESYRDFIYQNPHIFKDKVVLDVGCGTGILSMFAAKVGAKKVIAVDQSEILYQAMDIIRLNKLEDTIVLIKGKIEEVSLPVEKVDVIISEWMGYFLLFESMLDSVLYAKSKYLAKGGSVYPDICTISLVAVSDVSKHADRIAFWDDVYGFNMSCMKKAVIPEAVVEVVDHKTLISDPCDIK
IRESfinder result
IRESfinder score
0.574059615
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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