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mmu_circAraf_1130
Basic information of circular RNA
PanCircBase ID:
mmu_circAraf_1130
mm39_Chr. Position ID:
chrX|20716165|20720354|+
Gene name:
Araf
Transcript:
ENSMUST00000136451.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
2,3,4,5,6,7,8,9,10
Exon/intron offsets:
0,318,1539,1731,2003,3391,3633,3750,3986
Genomic length:
4189
Exon/intron sizes in nt:
15,61,04,10,31,55,99,10,00,00,00,000
Flanking exon/introns:
chrX:20664120-20716165|chrX:20720354-20723649
Splice length:
1130
Other database IDs:
circAtlas: mmu-Araf_0001
Human Ortholog IDs:
Mature spliced Sequence:
GAGGCCTATGGCAGCTGCCCAGTCCTACCTCAGCCCATCTTGAAAACAATCTTAGGCAACATGGAACCACCACGAGGCCCTCCTGTTAGTGGGGCTGAGCCATCTCGGGCAGTTGGCACTGTCAAAGTGTACCTGCCTAACAAGCAACGCACAGTGGTGACTGTCCGGGAAGGCATGAGTGTCTATGACTCTTTGGACAAGGCCCTGAAGGTGCGGGGTCTCAACCAGGACTGCTGTGTGGTCTACAGGCTCATCAAAGGAAGAAAGACAGTCACTGCCTGGGACACAGCCATTGCGCCTCTGGATGGTGAGGAGCTCATTGTGGAGGTCCTAGAAGATGTGCCACTGACCATGCACAATTTTGTACGGAAGACATTCTTCAGCCTGGCCTTCTGTGACTTCTGCCTTAAGTTTCTGTTCCATGGATTCCGCTGCCAGACCTGTGGCTACAAGTTCCACCAGCATTGTTCCTCCAAGGTCCCCACCGTCTGCGTTGACATGAGTACCAACCGCCGACAGTTCTACCACAGCATCCAGGATCTGTCTGGAGGCTCCAGGCAGCAGGAGGCTCCCTCAAATCTCTCTGTGAATGAGCTGCTAACCCCCCAGGGTCCCAGCCCCTTTACCCAGCAACGTGACCAGGAGCACTTCTCATTCCCTGCCCCTGCCAATCCCCCACTGCAGCGCATCCGCTCCACATCTACTCCTAACGTCCACATGGTCAGCACCACAGCTCCCATGGACTCCAGCCTCATGCAGTTTACTGCTCAGAGCTTCAGCACCGATGCTGCTGGTAGAGGTGGTGATGGAGCCCCTCGGGGTAGCCCTAGCCCAGCTAGTGTGTCTTCAGGGAGGAAGTCCCCACATTCCAAGTTACCTTCAGAACAGCGGGAGCGGAAGTCCTTGGCAGATGAAAAGAAAAAAGTGAAGAACCTGGGGTACCGGGACTCAGGCTATTACTGGGAGGTGCCACCCAGTGAGGTACAGCTGTTGAAGAGGATCGGGACAGGCTCTTTTGGCACTGTGTTTCGGGGGCGTTGGCATGGCGATGTAGCTGTGAAAGTGCTCAAGGTGGCCCAACCTACCGCTGAGCAGGCCCAGGCCTTCAAGAATGAGATGCAGGTGCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGAAAGTGCTCAAGGTGGC
59.69
CTCAGCCCCACTAACAGGAG
59.46
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGAAAGTGCTCAAGGTGGC
59.69
TGGTGGTTCCATGTTGCCTA
59.23
146
PCR template sequence:
GGGGGCGTTGGCATGGCGATGTAGCTGTGAAAGTGCTCAAGGTGGCCCAACCTACCGCTGAGCAGGCCCAGGCCTTCAAGAATGAGATGCAGGTGCTCAGGAGGCCTATGGCAGCTGCCCAGTCCTACCTCAGCCCATCTTGAAAACAATCTTAGGCAACATGGAACCACCACGAGGCCCTCCTGTTAGTGGGGCTGAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-221-3p(1), mmu-miR-217-5p(1), mmu-miR-24-3p(1), mmu-miR-382-3p(1), mmu-miR-127-5p(1), mmu-miR-370-3p(1), mmu-miR-107-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-673-5p(1), mmu-miR-1199-5p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCAGGTGCTCAGGAGGCCTATGGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARAF_1130_ORF_1
0.9401
0.346244069
0.997267284
1113
ORF sequence:
ATGGAACCACCACGAGGCCCTCCTGTTAGTGGGGCTGAGCCATCTCGGGCAGTTGGCACTGTCAAAGTGTACCTGCCTAACAAGCAACGCACAGTGGTGACTGTCCGGGAAGGCATGAGTGTCTATGACTCTTTGGACAAGGCCCTGAAGGTGCGGGGTCTCAACCAGGACTGCTGTGTGGTCTACAGGCTCATCAAAGGAAGAAAGACAGTCACTGCCTGGGACACAGCCATTGCGCCTCTGGATGGTGAGGAGCTCATTGTGGAGGTCCTAGAAGATGTGCCACTGACCATGCACAATTTTGTACGGAAGACATTCTTCAGCCTGGCCTTCTGTGACTTCTGCCTTAAGTTTCTGTTCCATGGATTCCGCTGCCAGACCTGTGGCTACAAGTTCCACCAGCATTGTTCCTCCAAGGTCCCCACCGTCTGCGTTGACATGAGTACCAACCGCCGACAGTTCTACCACAGCATCCAGGATCTGTCTGGAGGCTCCAGGCAGCAGGAGGCTCCCTCAAATCTCTCTGTGAATGAGCTGCTAACCCCCCAGGGTCCCAGCCCCTTTACCCAGCAACGTGACCAGGAGCACTTCTCATTCCCTGCCCCTGCCAATCCCCCACTGCAGCGCATCCGCTCCACATCTACTCCTAACGTCCACATGGTCAGCACCACAGCTCCCATGGACTCCAGCCTCATGCAGTTTACTGCTCAGAGCTTCAGCACCGATGCTGCTGGTAGAGGTGGTGATGGAGCCCCTCGGGGTAGCCCTAGCCCAGCTAGTGTGTCTTCAGGGAGGAAGTCCCCACATTCCAAGTTACCTTCAGAACAGCGGGAGCGGAAGTCCTTGGCAGATGAAAAGAAAAAAGTGAAGAACCTGGGGTACCGGGACTCAGGCTATTACTGGGAGGTGCCACCCAGTGAGGTACAGCTGTTGAAGAGGATCGGGACAGGCTCTTTTGGCACTGTGTTTCGGGGGCGTTGGCATGGCGATGTAGCTGTGAAAGTGCTCAAGGTGGCCCAACCTACCGCTGAGCAGGCCCAGGCCTTCAAGAATGAGATGCAGGTGCTCAGGAGGCCTATGGCAGCTGCCCAGTCCTACCTCAGCCCATCTTGA
Peptide sequence:
MEPPRGPPVSGAEPSRAVGTVKVYLPNKQRTVVTVREGMSVYDSLDKALKVRGLNQDCCVVYRLIKGRKTVTAWDTAIAPLDGEELIVEVLEDVPLTMHNFVRKTFFSLAFCDFCLKFLFHGFRCQTCGYKFHQHCSSKVPTVCVDMSTNRRQFYHSIQDLSGGSRQQEAPSNLSVNELLTPQGPSPFTQQRDQEHFSFPAPANPPLQRIRSTSTPNVHMVSTTAPMDSSLMQFTAQSFSTDAAGRGGDGAPRGSPSPASVSSGRKSPHSKLPSEQRERKSLADEKKKVKNLGYRDSGYYWEVPPSEVQLLKRIGTGSFGTVFRGRWHGDVAVKVLKVAQPTAEQAQAFKNEMQVLRRPMAAAQSYLSPS
IRESfinder result
IRESfinder score
0.501855322
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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