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mmu_circAW554918_890
Basic information of circular RNA
PanCircBase ID:
mmu_circAW554918_890
mm39_Chr. Position ID:
chr18|25423003|25478019|+
Gene name:
AW554918
Transcript:
ENSMUST00000165400.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,8,9
Exon/intron offsets:
0,49767,54917
Genomic length:
55016
Exon/intron sizes in nt:
120,671,99
Flanking exon/introns:
chr18:25347577-25423003|chr18:25478019-25532982
Splice length:
890
Other database IDs:
circBase: mmu_circ_0007189, CIRCpedia: MMU_CIRCpedia_14455, circAtlas: mmu-AW554918_0002
circAtlas: hsa-KIAA1328_0001
Human Ortholog IDs:
Mature spliced Sequence:
CTACAGTATAGAGAATGCCAAGAACTTCTAAGTCTCTACCAGAAGTACCTATCGGAGCAGCAAGAGAAGCTTACCCTGTCCCTCTCAGAGCTTGGAGCTGCTAGAGCGCAGGAGCAGCAGATAACCAAGAAGAAAAACACTCCCCAGTGTTCATTGATGGACCTGGATGGTTCCTTTCTGAGTGTAGCCAGACCACAAAACTACGGTCAGACCAAGGCGAGGCCTAAGTCAGCAAACCAGGTCTCAGAATCGTTTACAGAATTAAGGAATAATTCCTTGAGGCCAATAACACTTCATCATCCCAAAGAAGATTTAGAGAGGATGTCAACAAAAACCAGAACATGTACTTATGAATCTCTGGGGAGAAGACTAATAAATGCAGCCCCAATAGAGAAATCTCTCCCAGTAGAGTTGAAGATAAAGGAATACCCAAACCTTCCACCTACTCCATCTAGTCAGTACTGTGGTCATAAATGCTCTGAAAGTGGAGCTTATGTTCATGAGAACTATCACCCTACAAACATGGCCCCTCAATGTTGTAAGACACATCCAGAATCATGCAGTCATTGTAGGATTCCCTGGGCATCTCAAATGCATGATCGAGTGATACTGCAACCCCGAGAAACTGACATTGAAAAACAACTCTCAGAAGATCGAAGGCAACAGCTGATGCTTCAGAAAATGGAACTGGAAATTGAAAAGGAACGCCTTCAGCATCTCCTGGCCCAACAAGAGACGAAGCTTCTCCTTAAACAGCAGCAGCTGCACCAATCCCGACTAGATTACAATTGGTTAAGAACTCAAGCTATGTTTAAATCTCGAGAGCTGGTTGCCGATAAAGAGTTTCCTAAACCTGATCTGGATATGAATGGGAGTGTCTCTGGACCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATCTCGAGAGCTGGTTGCC
60.11
GCTCTGAGAGGGACAGGGTA
60.03
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGAGAGCTGGTTGCCGATAA
60.18
GCTCTGAGAGGGACAGGGTA
60.03
162
PCR template sequence:
GGTTAAGAACTCAAGCTATGTTTAAATCTCGAGAGCTGGTTGCCGATAAAGAGTTTCCTAAACCTGATCTGGATATGAATGGGAGTGTCTCTGGACCAAGCTACAGTATAGAGAATGCCAAGAACTTCTAAGTCTCTACCAGAAGTACCTATCGGAGCAGCAAGAGAAGCTTACCCTGTCCCTCTCAGAGCTTGGAGCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-223-3p(1), mmu-miR-101a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTCTGGACCAAGCTACAGTATAGAG
siRNA sets
ATACTGTAGCTTGGTCCAG, TACTGTAGCTTGGTCCAGA, ACTGTAGCTTGGTCCAGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAW554918_890_ORF_1
0.8099
0.040596631
0.870780213
765
ORF sequence:
ATGGACCTGGATGGTTCCTTTCTGAGTGTAGCCAGACCACAAAACTACGGTCAGACCAAGGCGAGGCCTAAGTCAGCAAACCAGGTCTCAGAATCGTTTACAGAATTAAGGAATAATTCCTTGAGGCCAATAACACTTCATCATCCCAAAGAAGATTTAGAGAGGATGTCAACAAAAACCAGAACATGTACTTATGAATCTCTGGGGAGAAGACTAATAAATGCAGCCCCAATAGAGAAATCTCTCCCAGTAGAGTTGAAGATAAAGGAATACCCAAACCTTCCACCTACTCCATCTAGTCAGTACTGTGGTCATAAATGCTCTGAAAGTGGAGCTTATGTTCATGAGAACTATCACCCTACAAACATGGCCCCTCAATGTTGTAAGACACATCCAGAATCATGCAGTCATTGTAGGATTCCCTGGGCATCTCAAATGCATGATCGAGTGATACTGCAACCCCGAGAAACTGACATTGAAAAACAACTCTCAGAAGATCGAAGGCAACAGCTGATGCTTCAGAAAATGGAACTGGAAATTGAAAAGGAACGCCTTCAGCATCTCCTGGCCCAACAAGAGACGAAGCTTCTCCTTAAACAGCAGCAGCTGCACCAATCCCGACTAGATTACAATTGGTTAAGAACTCAAGCTATGTTTAAATCTCGAGAGCTGGTTGCCGATAAAGAGTTTCCTAAACCTGATCTGGATATGAATGGGAGTGTCTCTGGACCAAGCTACAGTATAGAGAATGCCAAGAACTTCTAA
Peptide sequence:
MDLDGSFLSVARPQNYGQTKARPKSANQVSESFTELRNNSLRPITLHHPKEDLERMSTKTRTCTYESLGRRLINAAPIEKSLPVELKIKEYPNLPPTPSSQYCGHKCSESGAYVHENYHPTNMAPQCCKTHPESCSHCRIPWASQMHDRVILQPRETDIEKQLSEDRRQQLMLQKMELEIEKERLQHLLAQQETKLLLKQQQLHQSRLDYNWLRTQAMFKSRELVADKEFPKPDLDMNGSVSGPSYSIENAKNF
IRESfinder result
IRESfinder score
0.653396983
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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