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mmu_circAppl1_1065
Basic information of circular RNA
PanCircBase ID:
mmu_circAppl1_1065
mm39_Chr. Position ID:
chr14|26662200|26680468|-
Gene name:
Appl1
Transcript:
ENSMUST00000036570.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
16,15,14,13,12,11,10,9,8,7
Exon/intron offsets:
0,2404,3668,5301,6877,9198,10308,11191,12734,18209
Genomic length:
18268
Exon/intron sizes in nt:
53,183,92,57,43,189,159,83,147,59
Flanking exon/introns:
chr14:26650690-26662200|chr14:26680468-26681381
Splice length:
1065
Other database IDs:
circAtlas: mmu-Appl1_0029
Human Ortholog IDs:
Mature spliced Sequence:
ATCATGATGCCGCAATTAATAGGTACAGTCGGTTGTCAAAAAAGAGAGAAAATGACAAGGTAAAATATGAAGTTACAGAGGATGTATATACTTCCAGGAAAAAACAACACCAGACCATGATGCATTATTTTTGTGCACTAAATACTCTTCAGTACAAGAAGAAAATAGCTTTGTTAGAACCTCTACTGGGATACATGCAGGCTCAGATAAGTTTCTTTAAGATGGGTTCTGAAAATCTCAATGGACAACTGGAAGAATTCTTAGCTAACATTGGAACAAGTGTACAGAATGTTCGAAGAGAAATGGATGGTGATGTAGAGACCATGCAGCAGACAATAGAAGACTTGGAGGTAGCCAGTGACCCTTTATATCTGCCTGACCCGGATCCCACCAAGTTTCCCATCAATCGAAATTTAACCCGAAAGGCTGGATACCTAAATGCTAGGAATAAAACAGGCTTGGTGTCATCTACCTGGGATAGACAGTTTTACTTCACGCAGGGTGGAAACTTAATGAGTCAAGCCCGTGGAGATGTGGCAGGAGGCCTAGCCATGGACATAGACAACTGTTCAGTGATGGCTGTGGACTGTGAAGACAGACGATACTGTTTTCAGATCACTTCTTTTGATGGAAAAAAATCTTCAATATTGCAAGCAGAGAGTAAAAAAGACCATGAAGAGTGGATCTGTACAATAAACAACATATCTAAACAAATATATTTGAGTGAAAATCCAGAGGAAACTGCTGCACGAGTGAATCAGTCTGCTCTAGAAGCTGTCACTCCTTCCCCATCTTTCCAGCAGAGACACGAGAGCCTGCGTCCAGGAGGACAATCTCGGCCACCAACAGCTCGAACCAGCAGTTCAGGATCCTTGGGATCAGAGTCTACAAATTTGGCTGCCCTCTCTCTAGATTCTCTTGTTGCTCCGGATACACCAATACAGTTTGATATAATTTCTCCTGTGTGTGAAGATCAGCCTGGCCAGGCAAAAGCCTTTGGTCAAGGAGGCAGGCGTACAAATCCATTTGGAGAATCTGGAGGAAGCACAAAATCAGAAACAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGAAGATCAGCCTGGCCAG
60.75
TTTTGACAACCGACTGTACCT
57.45
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGAAGATCAGCCTGGCC
59.7
TTTGACAACCGACTGTACCT
56.72
140
PCR template sequence:
TGTGAAGATCAGCCTGGCCAGGCAAAAGCCTTTGGTCAAGGAGGCAGGCGTACAAATCCATTTGGAGAATCTGGAGGAAGCACAAAATCAGAAACAGAAGATCATGATGCCGCAATTAATAGGTACAGTCGGTTGTCAAAAAAGAGAGAAAATGACAAGGTAAAATATGAAGTTACAGAGGATGTATATACTTCCAGGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-132-3p(1), mmu-miR-218-5p(1), mmu-miR-384-3p(1), mmu-miR-377-3p(1), mmu-miR-190b-5p(1), mmu-miR-5101(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAGAAACAGAAGATCATGATGCCGC
siRNA sets
TCATGATCTTCTGTTTCTG,CATGATCTTCTGTTTCTGA,CATCATGATCTTCTGTTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAPPL1_1065_ORF_1
0.9011
0.075290948
0.999986558
2013
ORF sequence:
ATGATGCATTATTTTTGTGCACTAAATACTCTTCAGTACAAGAAGAAAATAGCTTTGTTAGAACCTCTACTGGGATACATGCAGGCTCAGATAAGTTTCTTTAAGATGGGTTCTGAAAATCTCAATGGACAACTGGAAGAATTCTTAGCTAACATTGGAACAAGTGTACAGAATGTTCGAAGAGAAATGGATGGTGATGTAGAGACCATGCAGCAGACAATAGAAGACTTGGAGGTAGCCAGTGACCCTTTATATCTGCCTGACCCGGATCCCACCAAGTTTCCCATCAATCGAAATTTAACCCGAAAGGCTGGATACCTAAATGCTAGGAATAAAACAGGCTTGGTGTCATCTACCTGGGATAGACAGTTTTACTTCACGCAGGGTGGAAACTTAATGAGTCAAGCCCGTGGAGATGTGGCAGGAGGCCTAGCCATGGACATAGACAACTGTTCAGTGATGGCTGTGGACTGTGAAGACAGACGATACTGTTTTCAGATCACTTCTTTTGATGGAAAAAAATCTTCAATATTGCAAGCAGAGAGTAAAAAAGACCATGAAGAGTGGATCTGTACAATAAACAACATATCTAAACAAATATATTTGAGTGAAAATCCAGAGGAAACTGCTGCACGAGTGAATCAGTCTGCTCTAGAAGCTGTCACTCCTTCCCCATCTTTCCAGCAGAGACACGAGAGCCTGCGTCCAGGAGGACAATCTCGGCCACCAACAGCTCGAACCAGCAGTTCAGGATCCTTGGGATCAGAGTCTACAAATTTGGCTGCCCTCTCTCTAGATTCTCTTGTTGCTCCGGATACACCAATACAGTTTGATATAATTTCTCCTGTGTGTGAAGATCAGCCTGGCCAGGCAAAAGCCTTTGGTCAAGGAGGCAGGCGTACAAATCCATTTGGAGAATCTGGAGGAAGCACAAAATCAGAAACAGAAGATCATGATGCCGCAATTAATAGGTACAGTCGGTTGTCAAAAAAGAGAGAAAATGACAAGGTAAAATATGAAGTTACAGAGGATGTATATACTTCCAGGAAAAAACAACACCAGACCATGATGCATTATTTTTGTGCACTAAATACTCTTCAGTACAAGAAGAAAATAGCTTTGTTAGAACCTCTACTGGGATACATGCAGGCTCAGATAAGTTTCTTTAAGATGGGTTCTGAAAATCTCAATGGACAACTGGAAGAATTCTTAGCTAACATTGGAACAAGTGTACAGAATGTTCGAAGAGAAATGGATGGTGATGTAGAGACCATGCAGCAGACAATAGAAGACTTGGAGGTAGCCAGTGACCCTTTATATCTGCCTGACCCGGATCCCACCAAGTTTCCCATCAATCGAAATTTAACCCGAAAGGCTGGATACCTAAATGCTAGGAATAAAACAGGCTTGGTGTCATCTACCTGGGATAGACAGTTTTACTTCACGCAGGGTGGAAACTTAATGAGTCAAGCCCGTGGAGATGTGGCAGGAGGCCTAGCCATGGACATAGACAACTGTTCAGTGATGGCTGTGGACTGTGAAGACAGACGATACTGTTTTCAGATCACTTCTTTTGATGGAAAAAAATCTTCAATATTGCAAGCAGAGAGTAAAAAAGACCATGAAGAGTGGATCTGTACAATAAACAACATATCTAAACAAATATATTTGAGTGAAAATCCAGAGGAAACTGCTGCACGAGTGAATCAGTCTGCTCTAGAAGCTGTCACTCCTTCCCCATCTTTCCAGCAGAGACACGAGAGCCTGCGTCCAGGAGGACAATCTCGGCCACCAACAGCTCGAACCAGCAGTTCAGGATCCTTGGGATCAGAGTCTACAAATTTGGCTGCCCTCTCTCTAGATTCTCTTGTTGCTCCGGATACACCAATACAGTTTGATATAATTTCTCCTGTGTGTGAAGATCAGCCTGGCCAGGCAAAAGCCTTTGGTCAAGGAGGCAGGCGTACAAATCCATTTGGAGAATCTGGAGGAAGCACAAAATCAGAAACAGAA
Peptide sequence:
MMHYFCALNTLQYKKKIALLEPLLGYMQAQISFFKMGSENLNGQLEEFLANIGTSVQNVRREMDGDVETMQQTIEDLEVASDPLYLPDPDPTKFPINRNLTRKAGYLNARNKTGLVSSTWDRQFYFTQGGNLMSQARGDVAGGLAMDIDNCSVMAVDCEDRRYCFQITSFDGKKSSILQAESKKDHEEWICTINNISKQIYLSENPEETAARVNQSALEAVTPSPSFQQRHESLRPGGQSRPPTARTSSSGSLGSESTNLAALSLDSLVAPDTPIQFDIISPVCEDQPGQAKAFGQGGRRTNPFGESGGSTKSETEDHDAAINRYSRLSKKRENDKVKYEVTEDVYTSRKKQHQTMMHYFCALNTLQYKKKIALLEPLLGYMQAQISFFKMGSENLNGQLEEFLANIGTSVQNVRREMDGDVETMQQTIEDLEVASDPLYLPDPDPTKFPINRNLTRKAGYLNARNKTGLVSSTWDRQFYFTQGGNLMSQARGDVAGGLAMDIDNCSVMAVDCEDRRYCFQITSFDGKKSSILQAESKKDHEEWICTINNISKQIYLSENPEETAARVNQSALEAVTPSPSFQQRHESLRPGGQSRPPTARTSSSGSLGSESTNLAALSLDSLVAPDTPIQFDIISPVCEDQPGQAKAFGQGGRRTNPFGESGGSTKSETE
IRESfinder result
IRESfinder score
0.649923521
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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