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mmu_circFmn1_790
Basic information of circular RNA
PanCircBase ID:
mmu_circFmn1_790
mm39_Chr. Position ID:
chr2|113393627|113467169|+
Gene name:
Fmn1
Transcript:
ENSMUST00000099576.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
8,9,10,11,12,13,14,15
Exon/intron offsets:
0,18815,20748,29804,31740,33050,39886,73449
Genomic length:
73542
Exon/intron sizes in nt:
88,62,89,130,147,60,121,93
Flanking exon/introns:
chr2:113359808-113393627|chr2:113467169-113518453
Splice length:
790
Other database IDs:
circAtlas: mmu-FMN1_0009
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
ATCATCAAGTTATTGGATGGAAAGCGATCTCAAACTGTGGGAATCTTGATATCTAGTTTACATCTAGAAATGAAAGATATTCAACAGGCCATATTTACTGTGGATGACTCCGTGGTTGACCTGGAGACCTTAGCAGCCTTATATGAAAATCGAGCCCAGGAGGATGAACTGACTAAAATAAGAAAGTACTATGAGACATCCAAAGAAGAAGACTTGAAACTGCTGGACAAACCTGAACAATTTTTGCATGAGTTAGCCCAGATTCCCAATTTTGCCGAACGTGCCCAGTGCATAATCTTCAGGGCTGTATTTTCTGAGGGTATCACATCCTTACATCGAAAAGTAGAGATTGTCACACGGGCCTCGAAGGGCTTGTTGCACATGAAGAGTGTGAAGGATATCTTAGCTCTCATTCTGGCTTTTGGAAACTACATGAATGGAGGAAACAGGACGCGAGGGCAAGCAGACGGATATAGTTTAGAAATTCTGCCCAAACTCAAAGACGTCAAAAGTCGGGACAATGGGATGAATCTGGTGGACTATGTTGTGAAGTACTACCTGCGATACTATGATCAGGAAGCTGGAACAGACAAGAGTGTTTTCCCGCTGCCTGAACCACAGGATTTCTTCCTGGCCTCTCAAGTCAAGTTTGAAGACCTCCTAAAGGATTTGAGGAAGCTGAAGCGTCAACTAGAAGCAAGTGAGCAACAGATGAAGCTGGTGTGCAAGGAGTCCCCAAGGGAGTACCTGCAGCCTTTCAAGGACAAACTGGAGGAGTTCTTCAAGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAGCAAGTGAGCAACAGA
57.37
TCCCACAGTTTGAGATCGCT
59.02
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAGCAAGTGAGCAACAGATG
59.19
TCCCACAGTTTGAGATCGCT
59.02
140
PCR template sequence:
CTAGAAGCAAGTGAGCAACAGATGAAGCTGGTGTGCAAGGAGTCCCCAAGGGAGTACCTGCAGCCTTTCAAGGACAAACTGGAGGAGTTCTTCAAGAAAGATCATCAAGTTATTGGATGGAAAGCGATCTCAAACTGTGGGAATCTTGATATCTAGTTTACATCTAGAAATGAAAGATATTCAACAGGCCATATTTACTG
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-223-3p(1), mmu-miR-196a-5p(1), mmu-miR-503-5p(1), mmu-miR-136-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCTTCAAGAAAGATCATCAAGTTAT
siRNA sets
ATAACTTGATGATCTTTCT, AACTTGATGATCTTTCTTG, ACTTGATGATCTTTCTTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFMN1_790_ORF_1
1.148
0.294787204
0.975088052
777
ORF sequence:
ATGAAAGATATTCAACAGGCCATATTTACTGTGGATGACTCCGTGGTTGACCTGGAGACCTTAGCAGCCTTATATGAAAATCGAGCCCAGGAGGATGAACTGACTAAAATAAGAAAGTACTATGAGACATCCAAAGAAGAAGACTTGAAACTGCTGGACAAACCTGAACAATTTTTGCATGAGTTAGCCCAGATTCCCAATTTTGCCGAACGTGCCCAGTGCATAATCTTCAGGGCTGTATTTTCTGAGGGTATCACATCCTTACATCGAAAAGTAGAGATTGTCACACGGGCCTCGAAGGGCTTGTTGCACATGAAGAGTGTGAAGGATATCTTAGCTCTCATTCTGGCTTTTGGAAACTACATGAATGGAGGAAACAGGACGCGAGGGCAAGCAGACGGATATAGTTTAGAAATTCTGCCCAAACTCAAAGACGTCAAAAGTCGGGACAATGGGATGAATCTGGTGGACTATGTTGTGAAGTACTACCTGCGATACTATGATCAGGAAGCTGGAACAGACAAGAGTGTTTTCCCGCTGCCTGAACCACAGGATTTCTTCCTGGCCTCTCAAGTCAAGTTTGAAGACCTCCTAAAGGATTTGAGGAAGCTGAAGCGTCAACTAGAAGCAAGTGAGCAACAGATGAAGCTGGTGTGCAAGGAGTCCCCAAGGGAGTACCTGCAGCCTTTCAAGGACAAACTGGAGGAGTTCTTCAAGAAAGATCATCAAGTTATTGGATGGAAAGCGATCTCAAACTGTGGGAATCTTGATATCTAG
Peptide sequence:
MKDIQQAIFTVDDSVVDLETLAALYENRAQEDELTKIRKYYETSKEEDLKLLDKPEQFLHELAQIPNFAERAQCIIFRAVFSEGITSLHRKVEIVTRASKGLLHMKSVKDILALILAFGNYMNGGNRTRGQADGYSLEILPKLKDVKSRDNGMNLVDYVVKYYLRYYDQEAGTDKSVFPLPEPQDFFLASQVKFEDLLKDLRKLKRQLEASEQQMKLVCKESPREYLQPFKDKLEEFFKKDHQVIGWKAISNCGNLDI
IRESfinder result
IRESfinder score
0.589843212
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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