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mmu_circFastkd1_735
Basic information of circular RNA
PanCircBase ID:
mmu_circFastkd1_735
mm39_Chr. Position ID:
chr2|69520406|69530582|-
Gene name:
Fastkd1
Transcript:
ENSMUST00000073152.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
13,12,11,10,9,8
Exon/intron offsets:
0,1172,3806,4453,6780,10061
Genomic length:
10176
Exon/intron sizes in nt:
1,15,13,01,14,13,21,29,000
Flanking exon/introns:
chr2:69517484-69520406|chr2:69530582-69532706
Splice length:
735
Other database IDs:
CIRCpedia: MMU_CIRCpedia_27241, circAtlas: mmu-Fastkd1_0004
circBase: hsa_circ_0117992, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_38464
Human Ortholog IDs:
Mature spliced Sequence:
ATCCATCCCTTTTCAGTCCTTGCTATTATTCTCCCATTCAGCATTCTGAACTATGATCCACCTCAAAAGGATGAATTCTTTGGAGCGTGTGTCCAATGCTGTAATTCTTACTTAGGTACATTGGATCCTGGTACATTAGTGTTTCTTGGTTTTTCTTTGGCCGTACTTGAATATTTTCCAGAAGATCTGCTAAAGAAAATGTTTAACATCGAGTTCCTTGCCAGATTAGATTCCCAGCTTGAAATTTTACCTTCAAGTCTGAGTGCAAGGATCCAGTTCCGCCTCATGGAGTTAAATAGAGCAGTCTGCTTGGAGTGCCCCGAGCTGCAGGTTCCATGGTTTCATGACCGCTTTTGTCAGCGACAGTTTAACAAAGACACTGGTGTTATGAACGGAGCCCAACAACAGATCTATAAAATGTTAGCAGAGGTCCTGGGAGGACACCAATGTGTGAAGCCTTCCGCTCTTTCACCGTATTACCACACAGTGGGTTTTGAATGCATTTTGGATAAACGAAAAAAACCTCTGCCTTATGAAAGCCATAGCATAGCTCCCAGAAAATCCCTGGGCATGCACTGGGATTCAAGAGTTGAGCCAAGGCTTCCACCAGAAGCTGAGAGGATTGCTATAGAACTTTTGGATGTAAGAGCCTTTTGTTCAAACATTCCTCACTTAAAAGGAAAATCTGCTATGAAAAAGCGGCATTTGGAAATCTTGGGCTACCGTGTTATTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGCTATGAAAAAGCGGCA
58.18
TGGACACACGCTCCAAAGAA
59.82
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGCTATGAAAAAGCGGCA
58.18
TTGGACACACGCTCCAAAGA
59.82
147
PCR template sequence:
TTTGGATGTAAGAGCCTTTTGTTCAAACATTCCTCACTTAAAAGGAAAATCTGCTATGAAAAAGCGGCATTTGGAAATCTTGGGCTACCGTGTTATTCAGATCCATCCCTTTTCAGTCCTTGCTATTATTCTCCCATTCAGCATTCTGAACTATGATCCACCTCAAAAGGATGAATTCTTTGGAGCGTGTGTCCAATGCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-362-5p(1), mmu-miR-107-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCGTGTTATTCAGATCCATCCCTTTT
siRNA sets
AAAGGGATGGATCTGAATA, AAAAGGGATGGATCTGAAT, ATGGATCTGAATAACACGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFASTKD1_735_ORF_1
0.7368
0.018814118
0.995268607
1272
ORF sequence:
ATGTTTAACATCGAGTTCCTTGCCAGATTAGATTCCCAGCTTGAAATTTTACCTTCAAGTCTGAGTGCAAGGATCCAGTTCCGCCTCATGGAGTTAAATAGAGCAGTCTGCTTGGAGTGCCCCGAGCTGCAGGTTCCATGGTTTCATGACCGCTTTTGTCAGCGACAGTTTAACAAAGACACTGGTGTTATGAACGGAGCCCAACAACAGATCTATAAAATGTTAGCAGAGGTCCTGGGAGGACACCAATGTGTGAAGCCTTCCGCTCTTTCACCGTATTACCACACAGTGGGTTTTGAATGCATTTTGGATAAACGAAAAAAACCTCTGCCTTATGAAAGCCATAGCATAGCTCCCAGAAAATCCCTGGGCATGCACTGGGATTCAAGAGTTGAGCCAAGGCTTCCACCAGAAGCTGAGAGGATTGCTATAGAACTTTTGGATGTAAGAGCCTTTTGTTCAAACATTCCTCACTTAAAAGGAAAATCTGCTATGAAAAAGCGGCATTTGGAAATCTTGGGCTACCGTGTTATTCAGATCCATCCCTTTTCAGTCCTTGCTATTATTCTCCCATTCAGCATTCTGAACTATGATCCACCTCAAAAGGATGAATTCTTTGGAGCGTGTGTCCAATGCTGTAATTCTTACTTAGGTACATTGGATCCTGGTACATTAGTGTTTCTTGGTTTTTCTTTGGCCGTACTTGAATATTTTCCAGAAGATCTGCTAAAGAAAATGTTTAACATCGAGTTCCTTGCCAGATTAGATTCCCAGCTTGAAATTTTACCTTCAAGTCTGAGTGCAAGGATCCAGTTCCGCCTCATGGAGTTAAATAGAGCAGTCTGCTTGGAGTGCCCCGAGCTGCAGGTTCCATGGTTTCATGACCGCTTTTGTCAGCGACAGTTTAACAAAGACACTGGTGTTATGAACGGAGCCCAACAACAGATCTATAAAATGTTAGCAGAGGTCCTGGGAGGACACCAATGTGTGAAGCCTTCCGCTCTTTCACCGTATTACCACACAGTGGGTTTTGAATGCATTTTGGATAAACGAAAAAAACCTCTGCCTTATGAAAGCCATAGCATAGCTCCCAGAAAATCCCTGGGCATGCACTGGGATTCAAGAGTTGAGCCAAGGCTTCCACCAGAAGCTGAGAGGATTGCTATAGAACTTTTGGATGTAAGAGCCTTTTGTTCAAACATTCCTCACTTAAAAGGAAAATCTGCTATGAAAAAGCGGCATTTGGAAATCTTGGGCTACCGTGTTATTCAG
Peptide sequence:
MFNIEFLARLDSQLEILPSSLSARIQFRLMELNRAVCLECPELQVPWFHDRFCQRQFNKDTGVMNGAQQQIYKMLAEVLGGHQCVKPSALSPYYHTVGFECILDKRKKPLPYESHSIAPRKSLGMHWDSRVEPRLPPEAERIAIELLDVRAFCSNIPHLKGKSAMKKRHLEILGYRVIQIHPFSVLAIILPFSILNYDPPQKDEFFGACVQCCNSYLGTLDPGTLVFLGFSLAVLEYFPEDLLKKMFNIEFLARLDSQLEILPSSLSARIQFRLMELNRAVCLECPELQVPWFHDRFCQRQFNKDTGVMNGAQQQIYKMLAEVLGGHQCVKPSALSPYYHTVGFECILDKRKKPLPYESHSIAPRKSLGMHWDSRVEPRLPPEAERIAIELLDVRAFCSNIPHLKGKSAMKKRHLEILGYRVIQ
IRESfinder result
IRESfinder score
0.814721569
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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