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mmu_circDhx8_1138
Basic information of circular RNA
PanCircBase ID:
mmu_circDhx8_1138
mm39_Chr. Position ID:
chr11|101626203|101632414|+
Gene name:
Dhx8
Transcript:
ENSMUST00000039152.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
3,4,5,6,7,8,9
Exon/intron offsets:
0,431,2279,2752,4326,5285,6123
Genomic length:
6211
Exon/intron sizes in nt:
73,86,110,432,145,204,88
Flanking exon/introns:
chr11:101625067-101626203|chr11:101632414-101633901
Splice length:
1138
Other database IDs:
circAtlas: mmu-Dhx8_0002
Human Ortholog IDs:
Mature spliced Sequence:
GATTCTCTTATTAGCAACCTCCTGCGTCTCATACAGACCATGCGGCCTCCTGCAAAGCCTTCTACCAGTAAAGATCCGGTTGTTAAACCCAAAACCGAAAAAGAAAAGCTGAGGGAACTCTTCCCCGTCCTCTGCCAGCCGGACAACCCTTCAGCTCGGACCATGTTGGATGAGGAAGATGTGAAAGTCGCTGTGGACGTCTTGAAAGAGCTGGAAGCTTTAATGCCCAGCGCAGCAGGCCAAGAGAAACAAAGAGACCCTGAGCACAGGGACAGGACAAAGAAGAAGAAGAGGAGTCGGAGCCGAGACCGAGATCGAGACCGAGACCGAGACCGGGACCGGGACCGGGACCGGGACAGGGACCGTGACAAGGACCGAGAACGAGATAGAGATCGAGAACGAGACAGAGAGCGAGATAGAGAGAGAGACCATAAGCGGAGACACCGATCACGCTCTCGGTCACATTCTAGAACCCGGGAGAGGACTAAGGGGAAATCTAGATACAGATCTAGGAGCAGAAGTCAGAGTCCCTTCAAAGATCGGAAAGACCGAGAAAAGTATGGGGAGAGGAACTTGGACAGATGGCGGGATAAGCATGTGGACCGCCCTCCCCCGGAAGAGCCTGCCATTGGAGATATTTACAATGGCAAAGTGACCAGTATCATGCAGTTCGGTTGCTTTGTGCAGCTGGAAGGCCTAAGGAAGCGGTGGGAAGGCCTGGTGCACATCTCTGAGCTCCGACGGGAAGGTCGAGTGGCCAATGTGGCTGATGTTGTGAGTAAAGGCCAGAGAGTCAAGGTCAAAGTTCTGTCCTTCACTGGAACCAAGACCAGCCTGAGCATGAAGGATGTGGACCAAGAGACAGGAGAAGACCTAAACCCAAACAGACGGAGAAATCTGGTTGGCGAGACCAATGAAGAGACGTCAATGCGGAACCCAGACAGACCCACTCACCTCTCCCTTGTCAGCGCTCCTGAAGTAGAGGATGACTCGCTGGAGCGCAAGCGGCTCACCCGAATCTCTGACCCAGAGAAGTGGGAGATCAAACAGATGATTGCTGCCAATGTGCTTTCCAAAGAAGAGTTTCCAGACTTCGACGAAGAGACTGGCATTCTCCCCAAGGTGGATGATGAAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGCCAATGTGCTTTCCAA
59.97
TAGAAGGCTTTGCAGGAGGC
60.04
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGCTGCCAATGTGCTTTCC
59.97
TAGAAGGCTTTGCAGGAGGC
60.04
148
PCR template sequence:
GAGATCAAACAGATGATTGCTGCCAATGTGCTTTCCAAAGAAGAGTTTCCAGACTTCGACGAAGAGACTGGCATTCTCCCCAAGGTGGATGATGAAGAAGGATTCTCTTATTAGCAACCTCCTGCGTCTCATACAGACCATGCGGCCTCCTGCAAAGCCTTCTACCAGTAAAGATCCGGTTGTTAAACCCAAAACCGAAA
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-23b-3p(1), mmu-miR-221-3p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-298-5p(1), mmu-miR-217-5p(1), mmu-miR-222-3p(1), mmu-miR-339-5p(1), mmu-miR-370-3p(1), mmu-miR-541-5p(1), mmu-miR-207(1), mmu-miR-452-3p(1), mmu-miR-540-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GATGATGAAGAAGGATTCTCTTATTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDHX8_1138_ORF_1
0.9931
0.420011394
0.99910154
1212
ORF sequence:
ATGTGCTTTCCAAAGAAGAGTTTCCAGACTTCGACGAAGAGACTGGCATTCTCCCCAAGGTGGATGATGAAGAAGGATTCTCTTATTAGCAACCTCCTGCGTCTCATACAGACCATGCGGCCTCCTGCAAAGCCTTCTACCAGTAAAGATCCGGTTGTTAAACCCAAAACCGAAAAAGAAAAGCTGAGGGAACTCTTCCCCGTCCTCTGCCAGCCGGACAACCCTTCAGCTCGGACCATGTTGGATGAGGAAGATGTGAAAGTCGCTGTGGACGTCTTGAAAGAGCTGGAAGCTTTAATGCCCAGCGCAGCAGGCCAAGAGAAACAAAGAGACCCTGAGCACAGGGACAGGACAAAGAAGAAGAAGAGGAGTCGGAGCCGAGACCGAGATCGAGACCGAGACCGAGACCGGGACCGGGACCGGGACCGGGACAGGGACCGTGACAAGGACCGAGAACGAGATAGAGATCGAGAACGAGACAGAGAGCGAGATAGAGAGAGAGACCATAAGCGGAGACACCGATCACGCTCTCGGTCACATTCTAGAACCCGGGAGAGGACTAAGGGGAAATCTAGATACAGATCTAGGAGCAGAAGTCAGAGTCCCTTCAAAGATCGGAAAGACCGAGAAAAGTATGGGGAGAGGAACTTGGACAGATGGCGGGATAAGCATGTGGACCGCCCTCCCCCGGAAGAGCCTGCCATTGGAGATATTTACAATGGCAAAGTGACCAGTATCATGCAGTTCGGTTGCTTTGTGCAGCTGGAAGGCCTAAGGAAGCGGTGGGAAGGCCTGGTGCACATCTCTGAGCTCCGACGGGAAGGTCGAGTGGCCAATGTGGCTGATGTTGTGAGTAAAGGCCAGAGAGTCAAGGTCAAAGTTCTGTCCTTCACTGGAACCAAGACCAGCCTGAGCATGAAGGATGTGGACCAAGAGACAGGAGAAGACCTAAACCCAAACAGACGGAGAAATCTGGTTGGCGAGACCAATGAAGAGACGTCAATGCGGAACCCAGACAGACCCACTCACCTCTCCCTTGTCAGCGCTCCTGAAGTAGAGGATGACTCGCTGGAGCGCAAGCGGCTCACCCGAATCTCTGACCCAGAGAAGTGGGAGATCAAACAGATGATTGCTGCCAATGTGCTTTCCAAAGAAGAGTTTCCAGACTTCGACGAAGAGACTGGCATTCTCCCCAAGGTGGATGATGAAGAA
Peptide sequence:
MCFPKKSFQTSTKRLAFSPRWMMKKDSLISNLLRLIQTMRPPAKPSTSKDPVVKPKTEKEKLRELFPVLCQPDNPSARTMLDEEDVKVAVDVLKELEALMPSAAGQEKQRDPEHRDRTKKKKRSRSRDRDRDRDRDRDRDRDRDRDRDKDRERDRDRERDRERDRERDHKRRHRSRSRSHSRTRERTKGKSRYRSRSRSQSPFKDRKDREKYGERNLDRWRDKHVDRPPPEEPAIGDIYNGKVTSIMQFGCFVQLEGLRKRWEGLVHISELRREGRVANVADVVSKGQRVKVKVLSFTGTKTSLSMKDVDQETGEDLNPNRRRNLVGETNEETSMRNPDRPTHLSLVSAPEVEDDSLERKRLTRISDPEKWEIKQMIAANVLSKEEFPDFDEETGILPKVDDEE
IRESfinder result
IRESfinder score
0.303127254
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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