top of page
mmu_circAppl1_1012
Basic information of circular RNA
PanCircBase ID:
mmu_circAppl1_1012
mm39_Chr. Position ID:
chr14|26664604|26680468|-
Gene name:
Appl1
Transcript:
ENSMUST00000036570.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
15,14,13,12,11,10,9,8,7
Exon/intron offsets:
0,1264,2897,4473,6794,7904,8787,10330,15805
Genomic length:
15864
Exon/intron sizes in nt:
183,92,57,43,189,159,83,147,59
Flanking exon/introns:
chr14:26662253-26664604|chr14:26680468-26681381
Splice length:
1012
Other database IDs:
circAtlas: mmu-Appl1_0032
Human Ortholog IDs:
Mature spliced Sequence:
ATCATGATGCCGCAATTAATAGGTACAGTCGGTTGTCAAAAAAGAGAGAAAATGACAAGGTAAAATATGAAGTTACAGAGGATGTATATACTTCCAGGAAAAAACAACACCAGACCATGATGCATTATTTTTGTGCACTAAATACTCTTCAGTACAAGAAGAAAATAGCTTTGTTAGAACCTCTACTGGGATACATGCAGGCTCAGATAAGTTTCTTTAAGATGGGTTCTGAAAATCTCAATGGACAACTGGAAGAATTCTTAGCTAACATTGGAACAAGTGTACAGAATGTTCGAAGAGAAATGGATGGTGATGTAGAGACCATGCAGCAGACAATAGAAGACTTGGAGGTAGCCAGTGACCCTTTATATCTGCCTGACCCGGATCCCACCAAGTTTCCCATCAATCGAAATTTAACCCGAAAGGCTGGATACCTAAATGCTAGGAATAAAACAGGCTTGGTGTCATCTACCTGGGATAGACAGTTTTACTTCACGCAGGGTGGAAACTTAATGAGTCAAGCCCGTGGAGATGTGGCAGGAGGCCTAGCCATGGACATAGACAACTGTTCAGTGATGGCTGTGGACTGTGAAGACAGACGATACTGTTTTCAGATCACTTCTTTTGATGGAAAAAAATCTTCAATATTGCAAGCAGAGAGTAAAAAAGACCATGAAGAGTGGATCTGTACAATAAACAACATATCTAAACAAATATATTTGAGTGAAAATCCAGAGGAAACTGCTGCACGAGTGAATCAGTCTGCTCTAGAAGCTGTCACTCCTTCCCCATCTTTCCAGCAGAGACACGAGAGCCTGCGTCCAGGAGGACAATCTCGGCCACCAACAGCTCGAACCAGCAGTTCAGGATCCTTGGGATCAGAGTCTACAAATTTGGCTGCCCTCTCTCTAGATTCTCTTGTTGCTCCGGATACACCAATACAGTTTGATATAATTTCTCCTGTGTGTGAAGATCAGCCTGGCCAGGCAAAAGCCTTTGGTCAAGGAGGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCTTGTTGCTCCGGATACAC
60.09
TTTTTGACAACCGACTGTACCT
58.12
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCTTGTTGCTCCGGATACA
58.82
TTTTTGACAACCGACTGTACCT
58.12
140
PCR template sequence:
ATTCTCTTGTTGCTCCGGATACACCAATACAGTTTGATATAATTTCTCCTGTGTGTGAAGATCAGCCTGGCCAGGCAAAAGCCTTTGGTCAAGGAGGCAGATCATGATGCCGCAATTAATAGGTACAGTCGGTTGTCAAAAAAGAGAGAAAATGACAAGGTAAAATATGAAGTTACAGAGGATGTATATACTTCCAGGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-132-3p(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
GTCAAGGAGGCAGATCATGATGCCGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAPPL1_1012_ORF_1
0.8421
0.066569131
0.955387365
903
ORF sequence:
ATGATGCATTATTTTTGTGCACTAAATACTCTTCAGTACAAGAAGAAAATAGCTTTGTTAGAACCTCTACTGGGATACATGCAGGCTCAGATAAGTTTCTTTAAGATGGGTTCTGAAAATCTCAATGGACAACTGGAAGAATTCTTAGCTAACATTGGAACAAGTGTACAGAATGTTCGAAGAGAAATGGATGGTGATGTAGAGACCATGCAGCAGACAATAGAAGACTTGGAGGTAGCCAGTGACCCTTTATATCTGCCTGACCCGGATCCCACCAAGTTTCCCATCAATCGAAATTTAACCCGAAAGGCTGGATACCTAAATGCTAGGAATAAAACAGGCTTGGTGTCATCTACCTGGGATAGACAGTTTTACTTCACGCAGGGTGGAAACTTAATGAGTCAAGCCCGTGGAGATGTGGCAGGAGGCCTAGCCATGGACATAGACAACTGTTCAGTGATGGCTGTGGACTGTGAAGACAGACGATACTGTTTTCAGATCACTTCTTTTGATGGAAAAAAATCTTCAATATTGCAAGCAGAGAGTAAAAAAGACCATGAAGAGTGGATCTGTACAATAAACAACATATCTAAACAAATATATTTGAGTGAAAATCCAGAGGAAACTGCTGCACGAGTGAATCAGTCTGCTCTAGAAGCTGTCACTCCTTCCCCATCTTTCCAGCAGAGACACGAGAGCCTGCGTCCAGGAGGACAATCTCGGCCACCAACAGCTCGAACCAGCAGTTCAGGATCCTTGGGATCAGAGTCTACAAATTTGGCTGCCCTCTCTCTAGATTCTCTTGTTGCTCCGGATACACCAATACAGTTTGATATAATTTCTCCTGTGTGTGAAGATCAGCCTGGCCAGGCAAAAGCCTTTGGTCAAGGAGGCAGATCATGA
Peptide sequence:
MMHYFCALNTLQYKKKIALLEPLLGYMQAQISFFKMGSENLNGQLEEFLANIGTSVQNVRREMDGDVETMQQTIEDLEVASDPLYLPDPDPTKFPINRNLTRKAGYLNARNKTGLVSSTWDRQFYFTQGGNLMSQARGDVAGGLAMDIDNCSVMAVDCEDRRYCFQITSFDGKKSSILQAESKKDHEEWICTINNISKQIYLSENPEETAARVNQSALEAVTPSPSFQQRHESLRPGGQSRPPTARTSSSGSLGSESTNLAALSLDSLVAPDTPIQFDIISPVCEDQPGQAKAFGQGGRS
IRESfinder result
IRESfinder score
0.660467569
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page