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mmu_circFtsj3_1350
Basic information of circular RNA
PanCircBase ID:
mmu_circFtsj3_1350
mm39_Chr. Position ID:
chr11|106141173|106144230|-
Gene name:
Ftsj3
Transcript:
ENSMUST00000021048.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
17,16,15,14,13,12,11,10,9,8
Exon/intron offsets:
0,214,558,806,1855,2080,2318,2552,2733,2941
Genomic length:
3057
Exon/intron sizes in nt:
8,62,75,11,81,82,13,61,00,00,00,00,00,000
Flanking exon/introns:
chr11:106141080-106141173|chr11:106144230-106144307
Splice length:
1350
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GATTCCTGGCTCCGGACAAGGTTGATGCTAAATTCTTTGATCCCAAGTTTGCCTTTAAGGAGGTTGAAGTTCAGGCTAAAACTGTTACTGAGTTGGTGACAAAGAAGAAGCCAAAGGCTGAAGGCTATGCCGAAGGTGACCTTACTCTTTATCACCGAACCTCAGTTACGGACTTCTTGCGAGCTGCCAATCCTGTTGACTTCCTCTCCAAGGCCAGCGAAATCTCAATAGATGATGAAGAGTTGGCACAGCATCCAGCTACAACTGAAGACATTAGAGTATGCTGTCAGGACATCAAAGTGCTGGGGCGAAAGGAACTTAGGTCTCTTCTGAATTGGAGAACAAAGCTTCGGCGATATGTGGCTAAGAAGCTGAAAGAGCAAGCAAAGGCATTGGACATCAGCCTCAGCTCAGAAGAAGAAGAAGAAGGTGATGAAGAAGAGGCAGTAGCTGAGACAAAGCAGGCGCCAGAGGAAGAAGAAGAGAGAGAGGAAGAACAGCTTAATCGGACTCTGGCAGAGATGAAAGCCCAAGAAGTGGCAGAACTCAAGAGGAAGAAGAAGAAGTTGCTTCGTGAGCAGAGGAAGCAGCGGGAGCGTGTCGAGCTGAAGATGGATCTGCCTGGGGTTTCTATTGCAGATGAGGGGGAGACAGGCATGTTCTCCCTGCGAACCATCCGTGGCCAGCAGTTATTAGAGGAAGTAACACAAGGAGACATGAACGCTGCAGACACCTTTCTGTCTGATCTGCCAAGGGATGACATCTATGTGTCAGATGCTGAGGACGATGATGATACTTCTCTGGAAAGTGACCTGGATCCAGAAGAGCTGGCAGGAGTCAGGACACACTCGGATCTGAAGGAGCAGAAGTACTTGCGGTTTACTCAAGTAGATGACAATAAAGAGGAAGAAGGAGAAAATCCATTGCTGGTACCACTGGAAGAAAAGGCAGTACTGCAGGAAGAGCAAGCTAGCCTGTGGTTCTCCAAGGACGGCTTCAGTGGGATAGAGGATGATGCTGACGAAGCCCTGGAGATCAGTCAGGCACAGCTGCTGTACAAGAGCCGTCAGAAGGAGCAGCAGCCAACAGATCCACCTCCACCACCTACTAACTTGAAGACTGAGAAGAAATCTCCCCAGGGCCAGAATGAGGTCCCTAAGGAGACAGAAGCCATCTTGGGGACAGAGGCTGTCACTGACCCTGGAGGGGAGGAAAGAGGCAACAGCTCAGATAGTGACAGCAGCAGTAGTGAGGATGAAGATAGCTGGAAAGTGTCCCGTGGTGTGAAGCGAGGCCGTGGCTCTAAGGCAGATGAGGATGGGTTTGAGGTGGTGCCTATTCAGGACCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTGTCCCGTGGTGTGAAG
60.18
AGCCTGAACTTCAACCTCCT
58.56
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAAGTGTCCCGTGGTGTGA
60.18
AGCCTGAACTTCAACCTCCT
58.56
160
PCR template sequence:
GAGGATGAAGATAGCTGGAAAGTGTCCCGTGGTGTGAAGCGAGGCCGTGGCTCTAAGGCAGATGAGGATGGGTTTGAGGTGGTGCCTATTCAGGACCCAGGATTCCTGGCTCCGGACAAGGTTGATGCTAAATTCTTTGATCCCAAGTTTGCCTTTAAGGAGGTTGAAGTTCAGGCTAAAACTGTTACTGAGTTGGTGAC
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-135a-5p(1), mmu-miR-29a-3p(1), mmu-miR-127-3p(1), mmu-miR-383-5p(1), mmu-miR-802-5p(1), mmu-miR-335-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
ATTCAGGACCCAGGATTCCTGGCTCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFTSJ3_1350_ORF_1
1.1452
0.444339017
0.999999418
2178
ORF sequence:
ATGAAAGCCCAAGAAGTGGCAGAACTCAAGAGGAAGAAGAAGAAGTTGCTTCGTGAGCAGAGGAAGCAGCGGGAGCGTGTCGAGCTGAAGATGGATCTGCCTGGGGTTTCTATTGCAGATGAGGGGGAGACAGGCATGTTCTCCCTGCGAACCATCCGTGGCCAGCAGTTATTAGAGGAAGTAACACAAGGAGACATGAACGCTGCAGACACCTTTCTGTCTGATCTGCCAAGGGATGACATCTATGTGTCAGATGCTGAGGACGATGATGATACTTCTCTGGAAAGTGACCTGGATCCAGAAGAGCTGGCAGGAGTCAGGACACACTCGGATCTGAAGGAGCAGAAGTACTTGCGGTTTACTCAAGTAGATGACAATAAAGAGGAAGAAGGAGAAAATCCATTGCTGGTACCACTGGAAGAAAAGGCAGTACTGCAGGAAGAGCAAGCTAGCCTGTGGTTCTCCAAGGACGGCTTCAGTGGGATAGAGGATGATGCTGACGAAGCCCTGGAGATCAGTCAGGCACAGCTGCTGTACAAGAGCCGTCAGAAGGAGCAGCAGCCAACAGATCCACCTCCACCACCTACTAACTTGAAGACTGAGAAGAAATCTCCCCAGGGCCAGAATGAGGTCCCTAAGGAGACAGAAGCCATCTTGGGGACAGAGGCTGTCACTGACCCTGGAGGGGAGGAAAGAGGCAACAGCTCAGATAGTGACAGCAGCAGTAGTGAGGATGAAGATAGCTGGAAAGTGTCCCGTGGTGTGAAGCGAGGCCGTGGCTCTAAGGCAGATGAGGATGGGTTTGAGGTGGTGCCTATTCAGGACCCAGGATTCCTGGCTCCGGACAAGGTTGATGCTAAATTCTTTGATCCCAAGTTTGCCTTTAAGGAGGTTGAAGTTCAGGCTAAAACTGTTACTGAGTTGGTGACAAAGAAGAAGCCAAAGGCTGAAGGCTATGCCGAAGGTGACCTTACTCTTTATCACCGAACCTCAGTTACGGACTTCTTGCGAGCTGCCAATCCTGTTGACTTCCTCTCCAAGGCCAGCGAAATCTCAATAGATGATGAAGAGTTGGCACAGCATCCAGCTACAACTGAAGACATTAGAGTATGCTGTCAGGACATCAAAGTGCTGGGGCGAAAGGAACTTAGGTCTCTTCTGAATTGGAGAACAAAGCTTCGGCGATATGTGGCTAAGAAGCTGAAAGAGCAAGCAAAGGCATTGGACATCAGCCTCAGCTCAGAAGAAGAAGAAGAAGGTGATGAAGAAGAGGCAGTAGCTGAGACAAAGCAGGCGCCAGAGGAAGAAGAAGAGAGAGAGGAAGAACAGCTTAATCGGACTCTGGCAGAGATGAAAGCCCAAGAAGTGGCAGAACTCAAGAGGAAGAAGAAGAAGTTGCTTCGTGAGCAGAGGAAGCAGCGGGAGCGTGTCGAGCTGAAGATGGATCTGCCTGGGGTTTCTATTGCAGATGAGGGGGAGACAGGCATGTTCTCCCTGCGAACCATCCGTGGCCAGCAGTTATTAGAGGAAGTAACACAAGGAGACATGAACGCTGCAGACACCTTTCTGTCTGATCTGCCAAGGGATGACATCTATGTGTCAGATGCTGAGGACGATGATGATACTTCTCTGGAAAGTGACCTGGATCCAGAAGAGCTGGCAGGAGTCAGGACACACTCGGATCTGAAGGAGCAGAAGTACTTGCGGTTTACTCAAGTAGATGACAATAAAGAGGAAGAAGGAGAAAATCCATTGCTGGTACCACTGGAAGAAAAGGCAGTACTGCAGGAAGAGCAAGCTAGCCTGTGGTTCTCCAAGGACGGCTTCAGTGGGATAGAGGATGATGCTGACGAAGCCCTGGAGATCAGTCAGGCACAGCTGCTGTACAAGAGCCGTCAGAAGGAGCAGCAGCCAACAGATCCACCTCCACCACCTACTAACTTGAAGACTGAGAAGAAATCTCCCCAGGGCCAGAATGAGGTCCCTAAGGAGACAGAAGCCATCTTGGGGACAGAGGCTGTCACTGACCCTGGAGGGGAGGAAAGAGGCAACAGCTCAGATAGTGACAGCAGCAGTAGTGAGGATGAAGATAGCTGGAAAGTGTCCCGTGGTGTGAAGCGAGGCCGTGGCTCTAAGGCAGATGAGGATGGGTTTGAGGTGGTGCCTATTCAGGACCCA
Peptide sequence:
MKAQEVAELKRKKKKLLREQRKQRERVELKMDLPGVSIADEGETGMFSLRTIRGQQLLEEVTQGDMNAADTFLSDLPRDDIYVSDAEDDDDTSLESDLDPEELAGVRTHSDLKEQKYLRFTQVDDNKEEEGENPLLVPLEEKAVLQEEQASLWFSKDGFSGIEDDADEALEISQAQLLYKSRQKEQQPTDPPPPPTNLKTEKKSPQGQNEVPKETEAILGTEAVTDPGGEERGNSSDSDSSSSEDEDSWKVSRGVKRGRGSKADEDGFEVVPIQDPGFLAPDKVDAKFFDPKFAFKEVEVQAKTVTELVTKKKPKAEGYAEGDLTLYHRTSVTDFLRAANPVDFLSKASEISIDDEELAQHPATTEDIRVCCQDIKVLGRKELRSLLNWRTKLRRYVAKKLKEQAKALDISLSSEEEEEGDEEEAVAETKQAPEEEEEREEEQLNRTLAEMKAQEVAELKRKKKKLLREQRKQRERVELKMDLPGVSIADEGETGMFSLRTIRGQQLLEEVTQGDMNAADTFLSDLPRDDIYVSDAEDDDDTSLESDLDPEELAGVRTHSDLKEQKYLRFTQVDDNKEEEGENPLLVPLEEKAVLQEEQASLWFSKDGFSGIEDDADEALEISQAQLLYKSRQKEQQPTDPPPPPTNLKTEKKSPQGQNEVPKETEAILGTEAVTDPGGEERGNSSDSDSSSSEDEDSWKVSRGVKRGRGSKADEDGFEVVPIQDP
IRESfinder result
IRESfinder score
0.32148273
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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