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mmu_circFhad1_1056
Basic information of circular RNA
PanCircBase ID:
mmu_circFhad1_1056
mm39_Chr. Position ID:
chr4|141700099|141729908|-
Gene name:
Fhad1
Transcript:
ENSMUST00000105780.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
8,7,6,5,4,3
Exon/intron offsets:
0,1491,9359,12687,18311,29602
Genomic length:
29809
Exon/intron sizes in nt:
1,31,12,42,43,11,02,41,000
Flanking exon/introns:
chr4:141691985-141700099|chr4:141729908-141738855
Splice length:
1056
Other database IDs:
circAtlas: mmu-Fhad1_0020
Human Ortholog IDs:
Mature spliced Sequence:
TCCGCAGATATCGACAACCACCATGCCCTCATTGAATTCAACGAGGCCGAGGGCACCTTCGTCCTTCAGGACTTTAACTCCCGCAACGGCACGTTTGTCAACGAGTGCCACATTCAGAATGTGGCGGTGAAGCTGATCCCTGGGGACATTCTGCGGTTCGGGTCTGCAGGGATGACCTACGAGCTGGTCATTGAGAACCCGTCCCCGGTCTCCTGCCCATGGGTGAGGGGCCCAGCACCTTGGCCAAGTCCACAGCCACACCTGTCGTCCTCGCCACCCGACATGCCCTTCCACCACGGTATCCAGCCAGCAACAGTGCAGAGAAGTTGGTCACAGGGTTGTCCCAGACCCACCATGGTCCCACCTGCCCCTCACCAGCGGCCCATGAGTGCCAGCGGGAAGATGTTTTCCTTTGTGATGGACCCAAAGTCCCCTGTCATCAACCAAGTGTGGGCCAACGCTATGGACATGTCAGAGCAATGCATGATGGATGGACTCTCCGGGACGATACCTCCCACCGAGATCTTCATGGACCACGACCTAAGCCAGCAAGACAAGGACGAGATCATTCTGCTCTTGGGGAGAGAGGTTAATCGGCTCTCTGACTTTGAAATGGAGTCCAAATATAAAGACGCTCTGATCATGAACCTGCAGGCTGAGGTGGCCGACCTGAGCCAAAGGTTGTCAGAGACAGCCGCTGTCGCCGCAGCCAGGCAGAGTAACAGGTGTGACCCGAAGCTCCAGGGCGTGGATGAAGGCGACGATCTCAGGCAGAAGGAGATTGAGAGCATGAAAAGCCAGATCAACGCTCTTCAAAAAGGCTATAGCCAGGTGCTGAGTCAGACCCTGGCAGAGCGCAACACGGAAATCGAATCCCTGAAGAATGAGGGCGAGAACTTAAAGAGAGACCATGCCATTACATCAGGGATGGTGACATCTTTACAGAAAGACATGTCAGCACGCAACGAGCAAGTTCAACAGCTGCAGGAGGAGGTAAATCGACTGAGGATCGAGAACAGGGAGAAGGAGTACCAGCTGGAAGCCCTGAGCTCCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCAACGAGCAAGTTCAACA
59.97
CCTCGGCCTCGTTGAATTCA
60.39
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACGCAACGAGCAAGTTCAA
59.97
CCTCGGCCTCGTTGAATTCA
60.39
150
PCR template sequence:
AGCACGCAACGAGCAAGTTCAACAGCTGCAGGAGGAGGTAAATCGACTGAGGATCGAGAACAGGGAGAAGGAGTACCAGCTGGAAGCCCTGAGCTCCAGGTCCGCAGATATCGACAACCACCATGCCCTCATTGAATTCAACGAGGCCGAGGGCACCTTCGTCCTTCAGGACTTTAACTCCCGCAACGGCACGTTTGTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-296-5p(1), mmu-miR-375-3p(1), mmu-miR-205-5p(1), mmu-miR-335-5p(1), mmu-miR-33-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-24-3p(1), mmu-miR-431-5p(1), mmu-miR-541-5p(1), mmu-miR-705(1), mmu-miR-207(1), mmu-miR-350-3p(1), mmu-miR-670-5p(1), mmu-miR-202-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGAGCTCCAGGTCCGCAGATATCG
siRNA sets
TATCTGCGGACCTGGAGCT, ATCTGCGGACCTGGAGCTC, ATATCTGCGGACCTGGAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFHAD1_1056_ORF_1
1.2675
0.411378709
0.999997108
1941
ORF sequence:
ATGACCTACGAGCTGGTCATTGAGAACCCGTCCCCGGTCTCCTGCCCATGGGTGAGGGGCCCAGCACCTTGGCCAAGTCCACAGCCACACCTGTCGTCCTCGCCACCCGACATGCCCTTCCACCACGGTATCCAGCCAGCAACAGTGCAGAGAAGTTGGTCACAGGGTTGTCCCAGACCCACCATGGTCCCACCTGCCCCTCACCAGCGGCCCATGAGTGCCAGCGGGAAGATGTTTTCCTTTGTGATGGACCCAAAGTCCCCTGTCATCAACCAAGTGTGGGCCAACGCTATGGACATGTCAGAGCAATGCATGATGGATGGACTCTCCGGGACGATACCTCCCACCGAGATCTTCATGGACCACGACCTAAGCCAGCAAGACAAGGACGAGATCATTCTGCTCTTGGGGAGAGAGGTTAATCGGCTCTCTGACTTTGAAATGGAGTCCAAATATAAAGACGCTCTGATCATGAACCTGCAGGCTGAGGTGGCCGACCTGAGCCAAAGGTTGTCAGAGACAGCCGCTGTCGCCGCAGCCAGGCAGAGTAACAGGTGTGACCCGAAGCTCCAGGGCGTGGATGAAGGCGACGATCTCAGGCAGAAGGAGATTGAGAGCATGAAAAGCCAGATCAACGCTCTTCAAAAAGGCTATAGCCAGGTGCTGAGTCAGACCCTGGCAGAGCGCAACACGGAAATCGAATCCCTGAAGAATGAGGGCGAGAACTTAAAGAGAGACCATGCCATTACATCAGGGATGGTGACATCTTTACAGAAAGACATGTCAGCACGCAACGAGCAAGTTCAACAGCTGCAGGAGGAGGTAAATCGACTGAGGATCGAGAACAGGGAGAAGGAGTACCAGCTGGAAGCCCTGAGCTCCAGGTCCGCAGATATCGACAACCACCATGCCCTCATTGAATTCAACGAGGCCGAGGGCACCTTCGTCCTTCAGGACTTTAACTCCCGCAACGGCACGTTTGTCAACGAGTGCCACATTCAGAATGTGGCGGTGAAGCTGATCCCTGGGGACATTCTGCGGTTCGGGTCTGCAGGGATGACCTACGAGCTGGTCATTGAGAACCCGTCCCCGGTCTCCTGCCCATGGGTGAGGGGCCCAGCACCTTGGCCAAGTCCACAGCCACACCTGTCGTCCTCGCCACCCGACATGCCCTTCCACCACGGTATCCAGCCAGCAACAGTGCAGAGAAGTTGGTCACAGGGTTGTCCCAGACCCACCATGGTCCCACCTGCCCCTCACCAGCGGCCCATGAGTGCCAGCGGGAAGATGTTTTCCTTTGTGATGGACCCAAAGTCCCCTGTCATCAACCAAGTGTGGGCCAACGCTATGGACATGTCAGAGCAATGCATGATGGATGGACTCTCCGGGACGATACCTCCCACCGAGATCTTCATGGACCACGACCTAAGCCAGCAAGACAAGGACGAGATCATTCTGCTCTTGGGGAGAGAGGTTAATCGGCTCTCTGACTTTGAAATGGAGTCCAAATATAAAGACGCTCTGATCATGAACCTGCAGGCTGAGGTGGCCGACCTGAGCCAAAGGTTGTCAGAGACAGCCGCTGTCGCCGCAGCCAGGCAGAGTAACAGGTGTGACCCGAAGCTCCAGGGCGTGGATGAAGGCGACGATCTCAGGCAGAAGGAGATTGAGAGCATGAAAAGCCAGATCAACGCTCTTCAAAAAGGCTATAGCCAGGTGCTGAGTCAGACCCTGGCAGAGCGCAACACGGAAATCGAATCCCTGAAGAATGAGGGCGAGAACTTAAAGAGAGACCATGCCATTACATCAGGGATGGTGACATCTTTACAGAAAGACATGTCAGCACGCAACGAGCAAGTTCAACAGCTGCAGGAGGAGGTAAATCGACTGAGGATCGAGAACAGGGAGAAGGAGTACCAGCTGGAAGCCCTGAGCTCCAGG
Peptide sequence:
MTYELVIENPSPVSCPWVRGPAPWPSPQPHLSSSPPDMPFHHGIQPATVQRSWSQGCPRPTMVPPAPHQRPMSASGKMFSFVMDPKSPVINQVWANAMDMSEQCMMDGLSGTIPPTEIFMDHDLSQQDKDEIILLLGREVNRLSDFEMESKYKDALIMNLQAEVADLSQRLSETAAVAAARQSNRCDPKLQGVDEGDDLRQKEIESMKSQINALQKGYSQVLSQTLAERNTEIESLKNEGENLKRDHAITSGMVTSLQKDMSARNEQVQQLQEEVNRLRIENREKEYQLEALSSRSADIDNHHALIEFNEAEGTFVLQDFNSRNGTFVNECHIQNVAVKLIPGDILRFGSAGMTYELVIENPSPVSCPWVRGPAPWPSPQPHLSSSPPDMPFHHGIQPATVQRSWSQGCPRPTMVPPAPHQRPMSASGKMFSFVMDPKSPVINQVWANAMDMSEQCMMDGLSGTIPPTEIFMDHDLSQQDKDEIILLLGREVNRLSDFEMESKYKDALIMNLQAEVADLSQRLSETAAVAAARQSNRCDPKLQGVDEGDDLRQKEIESMKSQINALQKGYSQVLSQTLAERNTEIESLKNEGENLKRDHAITSGMVTSLQKDMSARNEQVQQLQEEVNRLRIENREKEYQLEALSSR
IRESfinder result
IRESfinder score
0.29319801
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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