top of page
mmu_circFrmd4a_714
Basic information of circular RNA
PanCircBase ID:
mmu_circFrmd4a_714
mm39_Chr. Position ID:
chr2|4436009|4542136|+
Gene name:
Frmd4a
Transcript:
ENSMUST00000177457.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
3,4,5,6,7,8,9,10,11,12
Exon/intron offsets:
0,41922,52841,66790,82590,83798,98593,103347,103974,106040
Genomic length:
106127
Exon/intron sizes in nt:
66,95,93,85,57,23,84,66,58,87
Flanking exon/introns:
chr2:4023393-4436009|chr2:4542136-4565024
Splice length:
714
Other database IDs:
CIRCpedia: MMU_CIRCpedia_20277, circAtlas: mmu-Frmd4a_0001
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_75805
Human Ortholog IDs:
Mature spliced Sequence:
ATGACGGAGGGCCGTCGATGTCAAGTACATCTCCTTGATGACAGGAAGCTGGAGCTGCTAGTACAGCCCAAGCTTTTGGCCAAGGAGCTTCTTGACCTCGTGGCCTCTCATTTCAACCTGAAGGAGAAGGAGTACTTTGGAATAGCATTCACAGATGAGACGGGACACTTGAATTGGCTCCAGCTCGATCGGAGAGTCCTGGAGCATGACTTCCCCAAAAAGTCTGGGCCGGTGGTTCTGTACTTCTGTGTCAGATTCTACATAGAGAGCATCTCCTACCTGAAGGACAATGCTACCATTGAGCTCTTCTTCCTGAATGCCAAGTCCTGCATCTACAAGGAGCTGATTGATGTTGACAGTGAAGTGGTATTTGAATTAGCTTCCTATATTTTACAGGAAGCAAAAGGAGATTTCTCTAGCAATGAGGTGGTGAGAAGTGATCTGAAAAAGCTGCCAGCGCTACCCACCCAAGCCCTGAAGGAACACCCCTCCCTGGCCTACTGTGAAGACAGAGTCATTGAGTACTACAAGAAGCTGAATGGCCAGACGAGGGGACAAGCAATCGTGAACTACATGAGTATCGTGGAGTCTCTGCCAACCTACGGTGTTCACTATTATGCAGTGAAAGACAAGCAGGGGATACCATGGTGGCTGGGACTGAGCTACAAAGGAATTTTCCAGTATGACTACCATGATAAAGTGAAGCCAAGGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GATACCATGGTGGCTGGGAC
60.18
AGGTCAAGAAGCTCCTTGGC
59.96
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATACCATGGTGGCTGGGAC
60.18
GAAGCTCCTTGGCCAAAAGC
60.04
167
PCR template sequence:
TTATGCAGTGAAAGACAAGCAGGGGATACCATGGTGGCTGGGACTGAGCTACAAAGGAATTTTCCAGTATGACTACCATGATAAAGTGAAGCCAAGGAAGATGACGGAGGGCCGTCGATGTCAAGTACATCTCCTTGATGACAGGAAGCTGGAGCTGCTAGTACAGCCCAAGCTTTTGGCCAAGGAGCTTCTTGACCTCG
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-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-203-3p(1), mmu-miR-339-5p(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAGCCAAGGAAGATGACGGAGGGCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFRMD4A_714_ORF_1
1.1902
0.358626194
0.999834777
1428
ORF sequence:
ATGACGGAGGGCCGTCGATGTCAAGTACATCTCCTTGATGACAGGAAGCTGGAGCTGCTAGTACAGCCCAAGCTTTTGGCCAAGGAGCTTCTTGACCTCGTGGCCTCTCATTTCAACCTGAAGGAGAAGGAGTACTTTGGAATAGCATTCACAGATGAGACGGGACACTTGAATTGGCTCCAGCTCGATCGGAGAGTCCTGGAGCATGACTTCCCCAAAAAGTCTGGGCCGGTGGTTCTGTACTTCTGTGTCAGATTCTACATAGAGAGCATCTCCTACCTGAAGGACAATGCTACCATTGAGCTCTTCTTCCTGAATGCCAAGTCCTGCATCTACAAGGAGCTGATTGATGTTGACAGTGAAGTGGTATTTGAATTAGCTTCCTATATTTTACAGGAAGCAAAAGGAGATTTCTCTAGCAATGAGGTGGTGAGAAGTGATCTGAAAAAGCTGCCAGCGCTACCCACCCAAGCCCTGAAGGAACACCCCTCCCTGGCCTACTGTGAAGACAGAGTCATTGAGTACTACAAGAAGCTGAATGGCCAGACGAGGGGACAAGCAATCGTGAACTACATGAGTATCGTGGAGTCTCTGCCAACCTACGGTGTTCACTATTATGCAGTGAAAGACAAGCAGGGGATACCATGGTGGCTGGGACTGAGCTACAAAGGAATTTTCCAGTATGACTACCATGATAAAGTGAAGCCAAGGAAGATGACGGAGGGCCGTCGATGTCAAGTACATCTCCTTGATGACAGGAAGCTGGAGCTGCTAGTACAGCCCAAGCTTTTGGCCAAGGAGCTTCTTGACCTCGTGGCCTCTCATTTCAACCTGAAGGAGAAGGAGTACTTTGGAATAGCATTCACAGATGAGACGGGACACTTGAATTGGCTCCAGCTCGATCGGAGAGTCCTGGAGCATGACTTCCCCAAAAAGTCTGGGCCGGTGGTTCTGTACTTCTGTGTCAGATTCTACATAGAGAGCATCTCCTACCTGAAGGACAATGCTACCATTGAGCTCTTCTTCCTGAATGCCAAGTCCTGCATCTACAAGGAGCTGATTGATGTTGACAGTGAAGTGGTATTTGAATTAGCTTCCTATATTTTACAGGAAGCAAAAGGAGATTTCTCTAGCAATGAGGTGGTGAGAAGTGATCTGAAAAAGCTGCCAGCGCTACCCACCCAAGCCCTGAAGGAACACCCCTCCCTGGCCTACTGTGAAGACAGAGTCATTGAGTACTACAAGAAGCTGAATGGCCAGACGAGGGGACAAGCAATCGTGAACTACATGAGTATCGTGGAGTCTCTGCCAACCTACGGTGTTCACTATTATGCAGTGAAAGACAAGCAGGGGATACCATGGTGGCTGGGACTGAGCTACAAAGGAATTTTCCAGTATGACTACCATGATAAAGTGAAGCCAAGGAAG
Peptide sequence:
MTEGRRCQVHLLDDRKLELLVQPKLLAKELLDLVASHFNLKEKEYFGIAFTDETGHLNWLQLDRRVLEHDFPKKSGPVVLYFCVRFYIESISYLKDNATIELFFLNAKSCIYKELIDVDSEVVFELASYILQEAKGDFSSNEVVRSDLKKLPALPTQALKEHPSLAYCEDRVIEYYKKLNGQTRGQAIVNYMSIVESLPTYGVHYYAVKDKQGIPWWLGLSYKGIFQYDYHDKVKPRKMTEGRRCQVHLLDDRKLELLVQPKLLAKELLDLVASHFNLKEKEYFGIAFTDETGHLNWLQLDRRVLEHDFPKKSGPVVLYFCVRFYIESISYLKDNATIELFFLNAKSCIYKELIDVDSEVVFELASYILQEAKGDFSSNEVVRSDLKKLPALPTQALKEHPSLAYCEDRVIEYYKKLNGQTRGQAIVNYMSIVESLPTYGVHYYAVKDKQGIPWWLGLSYKGIFQYDYHDKVKPRK
IRESfinder result
IRESfinder score
0.422733203
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page