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mmu_circFat3_666
Basic information of circular RNA
PanCircBase ID:
mmu_circFat3_666
mm39_Chr. Position ID:
chr9|15932611|15942716|-
Gene name:
Fat3
Transcript:
ENSMUST00000217308.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,6,5
Exon/intron offsets:
0,8498,9790
Genomic length:
10105
Exon/intron sizes in nt:
140,211,315
Flanking exon/introns:
chr9:15918101-15932611|chr9:15942716-15996554
Splice length:
666
Other database IDs:
circBase: mmu_circ_0015421, CIRCpedia: MMU_CIRCpedia_11080
circBase: hsa_circ_0096750, CIRCpedia: HSA_CIRCpedia_128475
Human Ortholog IDs:
Mature spliced Sequence:
GTGACAGTGACGGATGGCGGTTCTTCTCCAAAACAGTCAACCATTTGGGTGGTGGTTCAGGTTCTGGATGAAAACGACAACAGGCCCCAGTTCCCTGAGAAGGTTTACCAGATCAAACTTCCAGAACGTGACCGCAAGAAGAGGGGCGAACCCATTTACAGGGCTTTTGCCTTTGACAAAGATGAAGGCCCCAATGCAGAAATCTCCTACAGTATTGTGGATGGAAATGATGATGGAAAGTTTTTTATTGACCCTAAAACTGGCATGGTCTCTTCCAGAAAGCAATTCACAGCAGGGAGTTATGACATCCTGACGATCAAGGCTGTGGACAATGGCCGCCCACAGAAATCCTCCACTGCCCGCCTCCACATCGAATGGATTAAGAAGCCCCCGCCTTCACCTATACCATTGACATTCGATGAACCATTTTACAACTTCACCGTCATGGAGAGTGACAAAGTAACCGAGATTGTAGGGGTGGTGTCAGTGCAGCCAGCTAACACCCCTCTATGGTTTGACATCGTCGGGGGGAATTTTGACAGCTCTTTTGATGCAGAGAAGGGTGTTGGAACAATTGTCATTGCAAAGCCTTTGGATGCAGAGCAAAGGTCGGTGTACAACATGAGTGTCGAGGTCACCGATGGAACAAATATTGCTGTCACTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCTTTGGATGCAGAGCAA
60.25
GAACCTGAACCACCACCCAA
60.11
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCCTTTGGATGCAGAGCA
60.25
GAACCTGAACCACCACCCAA
60.11
145
PCR template sequence:
TGGAACAATTGTCATTGCAAAGCCTTTGGATGCAGAGCAAAGGTCGGTGTACAACATGAGTGTCGAGGTCACCGATGGAACAAATATTGCTGTCACTCAGGTGACAGTGACGGATGGCGGTTCTTCTCCAAAACAGTCAACCATTTGGGTGGTGGTTCAGGTTCTGGATGAAAACGACAACAGGCCCCAGTTCCCTGAGA
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-429-3p(1), mmu-miR-200c-3p(1), mmu-miR-434-3p(1), mmu-miR-433-5p(1), mmu-miR-382-5p(1), mmu-miR-673-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCTGTCACTCAGGTGACAGTGACGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFAT3_666_ORF_1
1.2794
0.323960896
0.997842344
1068
ORF sequence:
ATGGTCTCTTCCAGAAAGCAATTCACAGCAGGGAGTTATGACATCCTGACGATCAAGGCTGTGGACAATGGCCGCCCACAGAAATCCTCCACTGCCCGCCTCCACATCGAATGGATTAAGAAGCCCCCGCCTTCACCTATACCATTGACATTCGATGAACCATTTTACAACTTCACCGTCATGGAGAGTGACAAAGTAACCGAGATTGTAGGGGTGGTGTCAGTGCAGCCAGCTAACACCCCTCTATGGTTTGACATCGTCGGGGGGAATTTTGACAGCTCTTTTGATGCAGAGAAGGGTGTTGGAACAATTGTCATTGCAAAGCCTTTGGATGCAGAGCAAAGGTCGGTGTACAACATGAGTGTCGAGGTCACCGATGGAACAAATATTGCTGTCACTCAGGTGACAGTGACGGATGGCGGTTCTTCTCCAAAACAGTCAACCATTTGGGTGGTGGTTCAGGTTCTGGATGAAAACGACAACAGGCCCCAGTTCCCTGAGAAGGTTTACCAGATCAAACTTCCAGAACGTGACCGCAAGAAGAGGGGCGAACCCATTTACAGGGCTTTTGCCTTTGACAAAGATGAAGGCCCCAATGCAGAAATCTCCTACAGTATTGTGGATGGAAATGATGATGGAAAGTTTTTTATTGACCCTAAAACTGGCATGGTCTCTTCCAGAAAGCAATTCACAGCAGGGAGTTATGACATCCTGACGATCAAGGCTGTGGACAATGGCCGCCCACAGAAATCCTCCACTGCCCGCCTCCACATCGAATGGATTAAGAAGCCCCCGCCTTCACCTATACCATTGACATTCGATGAACCATTTTACAACTTCACCGTCATGGAGAGTGACAAAGTAACCGAGATTGTAGGGGTGGTGTCAGTGCAGCCAGCTAACACCCCTCTATGGTTTGACATCGTCGGGGGGAATTTTGACAGCTCTTTTGATGCAGAGAAGGGTGTTGGAACAATTGTCATTGCAAAGCCTTTGGATGCAGAGCAAAGGTCGGTGTACAACATGAGTGTCGAGGTCACCGATGGAACAAATATTGCTGTCACTCAG
Peptide sequence:
MVSSRKQFTAGSYDILTIKAVDNGRPQKSSTARLHIEWIKKPPPSPIPLTFDEPFYNFTVMESDKVTEIVGVVSVQPANTPLWFDIVGGNFDSSFDAEKGVGTIVIAKPLDAEQRSVYNMSVEVTDGTNIAVTQVTVTDGGSSPKQSTIWVVVQVLDENDNRPQFPEKVYQIKLPERDRKKRGEPIYRAFAFDKDEGPNAEISYSIVDGNDDGKFFIDPKTGMVSSRKQFTAGSYDILTIKAVDNGRPQKSSTARLHIEWIKKPPPSPIPLTFDEPFYNFTVMESDKVTEIVGVVSVQPANTPLWFDIVGGNFDSSFDAEKGVGTIVIAKPLDAEQRSVYNMSVEVTDGTNIAVTQ
IRESfinder result
IRESfinder score
0.559181907
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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