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mmu_circDhx57_1326
Basic information of circular RNA
PanCircBase ID:
mmu_circDhx57_1326
mm39_Chr. Position ID:
chr17|80577795|80583464|-
Gene name:
Dhx57
Transcript:
ENSMUST00000038166.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,2565,4397,5483
Genomic length:
5669
Exon/intron sizes in nt:
122,179,839,186
Flanking exon/introns:
chr17:80576376-80577795|chr17:80583464-80588624
Splice length:
1326
Other database IDs:
CIRCpedia: MMU_CIRCpedia_227135
Human Ortholog IDs:
Mature spliced Sequence:
AAGAGGCACCTCTGGGGAGGAGGAAGACAGCGAGCCCCAGTGTGGCGAGGAGCAGGGCTGGCCAGCTGGACAAGAGCCTATCTTTCTTCCTGACTGCAGTCCTTGGGAATATATAGGCCCAGAAGAAGTGGAGCCTCCTGTGCCAGAATGTGCAGTCTCACCCTTGGCAGTGCAGAAACTTTCCAGGTACGGCTTCCACACTGAGCACTGTCAGCTGGCCCTGAGGATCTGTGATGGAGACTTAGGGGCGGCACTAGAGCATCTTCTCCGCCAGTGTTTCTCAGAGACGTTTGGAGAGAGGATGGCGCTCTCTGAGGCAGCTGTTTATGTGAGCTTGAATGAGTGTGTGGAGCAGAGACAGGAAGAGACGCTTGCTCTCAAGTCCATCTGCGGAGAAAAATTCATAGAAAGAATTCAGAACAGAGTCTGGACCATTGGATTGGAACTGGATTATTTGACAAACAAATTCTGCAAGTCTAAGCAAAAGGAAAGTAGCAAAAATGTACGGGACACTTCGCCTGAAACCTGTAAATTTTACCTCAAAGGAAATTGTAAATTTGGATCAAAATGCAAATTCAAACATGAAGTGCCCCCACATCAAATGATTGGGAGAGCAGAAAGAAACGTAAATGACCCTCACCTTGACGCTGATGACGACACAACCTTTATGTATGAGCTTCAGATTCGCTTTTCTAAAGACCACAAATACCCCTACCAAGCTCCCCTGGTGGCATTTTATTCCACCAATGAGAACCTACCTCTGGCTTGTCGTTTACATATTTCTGAGTTCCTTTATGGCAAGGCCTTGGAATTTGCAAAAACTTCAGAACCTGTTGTCTATTCTCTGATCACCCTTTTAGAGGAAGAGTCAGAGATTGTCAAGTTACTAACACACACTCAACATAAGTATAGCGTTCCTCCTGTGAACGTCCCTCCAGTACCTTCCGAGACCAGAATAAGTAAACCTGCCTACCGCAAACCAGTGGTCCCAAGTAACACTTTCCTTTCTAATCAAATGCTAGAAGGGGAAAGATTGTCAGAACTCGAGGAGGATGCCGATGAGGATGAAGGACCTGCATCAATTATCGTGGAGAATGAAAGCTATGTGAACCTGAAGAAGAGGAGTTACAAAAGATACGACAGGCCGGCAAAGTCCTTATTTGCTGAGAACAGTAAGATCTGCAGGCAGTTTCAGATGAAACAGGCTTCCAGACAGTTCCACGCAATTCTGCAAGAAAGACAGTTACTGCCTGCTTGGGAAGAGAGAGAGACCATTCTGAAACTGCTGAGCAAGCACCAAGTGGTTGTCATAAGTGGTATGACTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTTACTGCCTGCTTGGGA
59.96
ATAGGCTCTTGTCCAGCTGG
59.16
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTGCTTGGGAAGAGAGAG
60.11
ATAGGCTCTTGTCCAGCTGG
59.16
159
PCR template sequence:
TTCTGCAAGAAAGACAGTTACTGCCTGCTTGGGAAGAGAGAGAGACCATTCTGAAACTGCTGAGCAAGCACCAAGTGGTTGTCATAAGTGGTATGACTGGAAGAGGCACCTCTGGGGAGGAGGAAGACAGCGAGCCCCAGTGTGGCGAGGAGCAGGGCTGGCCAGCTGGACAAGAGCCTATCTTTCTTCCTGACTGCAGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-106a-5p(1), mmu-miR-200c-3p(1), mmu-miR-26a-5p(1), mmu-miR-205-5p(1), mmu-miR-18a-5p(1), mmu-miR-26b-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-127-5p(1), mmu-miR-324-3p(1), mmu-miR-383-5p(1), mmu-miR-98-5p(1), mmu-miR-129-5p(1), mmu-miR-5101(1), mmu-miR-1904(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGGTATGACTGGAAGAGGCACCTCT
siRNA sets
TGCCTCTTCCAGTCATACC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDHX57_1326_ORF_1
0.9899
0.165318017
0.999999293
2349
ORF sequence:
ATGGCGCTCTCTGAGGCAGCTGTTTATGTGAGCTTGAATGAGTGTGTGGAGCAGAGACAGGAAGAGACGCTTGCTCTCAAGTCCATCTGCGGAGAAAAATTCATAGAAAGAATTCAGAACAGAGTCTGGACCATTGGATTGGAACTGGATTATTTGACAAACAAATTCTGCAAGTCTAAGCAAAAGGAAAGTAGCAAAAATGTACGGGACACTTCGCCTGAAACCTGTAAATTTTACCTCAAAGGAAATTGTAAATTTGGATCAAAATGCAAATTCAAACATGAAGTGCCCCCACATCAAATGATTGGGAGAGCAGAAAGAAACGTAAATGACCCTCACCTTGACGCTGATGACGACACAACCTTTATGTATGAGCTTCAGATTCGCTTTTCTAAAGACCACAAATACCCCTACCAAGCTCCCCTGGTGGCATTTTATTCCACCAATGAGAACCTACCTCTGGCTTGTCGTTTACATATTTCTGAGTTCCTTTATGGCAAGGCCTTGGAATTTGCAAAAACTTCAGAACCTGTTGTCTATTCTCTGATCACCCTTTTAGAGGAAGAGTCAGAGATTGTCAAGTTACTAACACACACTCAACATAAGTATAGCGTTCCTCCTGTGAACGTCCCTCCAGTACCTTCCGAGACCAGAATAAGTAAACCTGCCTACCGCAAACCAGTGGTCCCAAGTAACACTTTCCTTTCTAATCAAATGCTAGAAGGGGAAAGATTGTCAGAACTCGAGGAGGATGCCGATGAGGATGAAGGACCTGCATCAATTATCGTGGAGAATGAAAGCTATGTGAACCTGAAGAAGAGGAGTTACAAAAGATACGACAGGCCGGCAAAGTCCTTATTTGCTGAGAACAGTAAGATCTGCAGGCAGTTTCAGATGAAACAGGCTTCCAGACAGTTCCACGCAATTCTGCAAGAAAGACAGTTACTGCCTGCTTGGGAAGAGAGAGAGACCATTCTGAAACTGCTGAGCAAGCACCAAGTGGTTGTCATAAGTGGTATGACTGGAAGAGGCACCTCTGGGGAGGAGGAAGACAGCGAGCCCCAGTGTGGCGAGGAGCAGGGCTGGCCAGCTGGACAAGAGCCTATCTTTCTTCCTGACTGCAGTCCTTGGGAATATATAGGCCCAGAAGAAGTGGAGCCTCCTGTGCCAGAATGTGCAGTCTCACCCTTGGCAGTGCAGAAACTTTCCAGGTACGGCTTCCACACTGAGCACTGTCAGCTGGCCCTGAGGATCTGTGATGGAGACTTAGGGGCGGCACTAGAGCATCTTCTCCGCCAGTGTTTCTCAGAGACGTTTGGAGAGAGGATGGCGCTCTCTGAGGCAGCTGTTTATGTGAGCTTGAATGAGTGTGTGGAGCAGAGACAGGAAGAGACGCTTGCTCTCAAGTCCATCTGCGGAGAAAAATTCATAGAAAGAATTCAGAACAGAGTCTGGACCATTGGATTGGAACTGGATTATTTGACAAACAAATTCTGCAAGTCTAAGCAAAAGGAAAGTAGCAAAAATGTACGGGACACTTCGCCTGAAACCTGTAAATTTTACCTCAAAGGAAATTGTAAATTTGGATCAAAATGCAAATTCAAACATGAAGTGCCCCCACATCAAATGATTGGGAGAGCAGAAAGAAACGTAAATGACCCTCACCTTGACGCTGATGACGACACAACCTTTATGTATGAGCTTCAGATTCGCTTTTCTAAAGACCACAAATACCCCTACCAAGCTCCCCTGGTGGCATTTTATTCCACCAATGAGAACCTACCTCTGGCTTGTCGTTTACATATTTCTGAGTTCCTTTATGGCAAGGCCTTGGAATTTGCAAAAACTTCAGAACCTGTTGTCTATTCTCTGATCACCCTTTTAGAGGAAGAGTCAGAGATTGTCAAGTTACTAACACACACTCAACATAAGTATAGCGTTCCTCCTGTGAACGTCCCTCCAGTACCTTCCGAGACCAGAATAAGTAAACCTGCCTACCGCAAACCAGTGGTCCCAAGTAACACTTTCCTTTCTAATCAAATGCTAGAAGGGGAAAGATTGTCAGAACTCGAGGAGGATGCCGATGAGGATGAAGGACCTGCATCAATTATCGTGGAGAATGAAAGCTATGTGAACCTGAAGAAGAGGAGTTACAAAAGATACGACAGGCCGGCAAAGTCCTTATTTGCTGAGAACAGTAAGATCTGCAGGCAGTTTCAGATGAAACAGGCTTCCAGACAGTTCCACGCAATTCTGCAAGAAAGACAGTTACTGCCTGCTTGGGAAGAGAGAGAGACCATTCTGAAACTGCTGAGCAAGCACCAAGTGGTTGTCATAAGTGGTATGACT
Peptide sequence:
MALSEAAVYVSLNECVEQRQEETLALKSICGEKFIERIQNRVWTIGLELDYLTNKFCKSKQKESSKNVRDTSPETCKFYLKGNCKFGSKCKFKHEVPPHQMIGRAERNVNDPHLDADDDTTFMYELQIRFSKDHKYPYQAPLVAFYSTNENLPLACRLHISEFLYGKALEFAKTSEPVVYSLITLLEEESEIVKLLTHTQHKYSVPPVNVPPVPSETRISKPAYRKPVVPSNTFLSNQMLEGERLSELEEDADEDEGPASIIVENESYVNLKKRSYKRYDRPAKSLFAENSKICRQFQMKQASRQFHAILQERQLLPAWEERETILKLLSKHQVVVISGMTGRGTSGEEEDSEPQCGEEQGWPAGQEPIFLPDCSPWEYIGPEEVEPPVPECAVSPLAVQKLSRYGFHTEHCQLALRICDGDLGAALEHLLRQCFSETFGERMALSEAAVYVSLNECVEQRQEETLALKSICGEKFIERIQNRVWTIGLELDYLTNKFCKSKQKESSKNVRDTSPETCKFYLKGNCKFGSKCKFKHEVPPHQMIGRAERNVNDPHLDADDDTTFMYELQIRFSKDHKYPYQAPLVAFYSTNENLPLACRLHISEFLYGKALEFAKTSEPVVYSLITLLEEESEIVKLLTHTQHKYSVPPVNVPPVPSETRISKPAYRKPVVPSNTFLSNQMLEGERLSELEEDADEDEGPASIIVENESYVNLKKRSYKRYDRPAKSLFAENSKICRQFQMKQASRQFHAILQERQLLPAWEERETILKLLSKHQVVVISGMT
IRESfinder result
IRESfinder score
0.565775934
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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