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mmu_circDhx57_1681
Basic information of circular RNA
PanCircBase ID:
mmu_circDhx57_1681
mm39_Chr. Position ID:
chr17|80576180|80585810|-
Gene name:
Dhx57
Transcript:
ENSMUST00000086555.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
8,7,6,5,4,3
Exon/intron offsets:
0,1615,4180,6012,7098,9471
Genomic length:
9630
Exon/intron sizes in nt:
1,96,12,21,79,83,91,86,000
Flanking exon/introns:
chr17:80575068-80576180|chr17:80585810-80588624
Splice length:
1681
Other database IDs:
circAtlas: mmu-Dhx57_0021
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GCCCTGCGACAGTAACAAAAGCAAAGGAGAGACACGGCCTAAGTGGAAGCCCAAAGCCAAAGTGCCCCTTCAGACGCTGCACATGACATCAGAGAATCAGGAGAAGGTGAAAGCCCTTCTGAGGGATCTGCAGGAACAGGGTGCGGACGCGGGATCCGAAAGAGGCACCTCTGGGGAGGAGGAAGACAGCGAGCCCCAGTGTGGCGAGGAGCAGGGCTGGCCAGCTGGACAAGAGCCTATCTTTCTTCCTGACTGCAGTCCTTGGGAATATATAGGCCCAGAAGAAGTGGAGCCTCCTGTGCCAGAATGTGCAGTCTCACCCTTGGCAGTGCAGAAACTTTCCAGGTACGGCTTCCACACTGAGCACTGTCAGCTGGCCCTGAGGATCTGTGATGGAGACTTAGGGGCGGCACTAGAGCATCTTCTCCGCCAGTGTTTCTCAGAGACGTTTGGAGAGAGGATGGCGCTCTCTGAGGCAGCTGTTTATGTGAGCTTGAATGAGTGTGTGGAGCAGAGACAGGAAGAGACGCTTGCTCTCAAGTCCATCTGCGGAGAAAAATTCATAGAAAGAATTCAGAACAGAGTCTGGACCATTGGATTGGAACTGGATTATTTGACAAACAAATTCTGCAAGTCTAAGCAAAAGGAAAGTAGCAAAAATGTACGGGACACTTCGCCTGAAACCTGTAAATTTTACCTCAAAGGAAATTGTAAATTTGGATCAAAATGCAAATTCAAACATGAAGTGCCCCCACATCAAATGATTGGGAGAGCAGAAAGAAACGTAAATGACCCTCACCTTGACGCTGATGACGACACAACCTTTATGTATGAGCTTCAGATTCGCTTTTCTAAAGACCACAAATACCCCTACCAAGCTCCCCTGGTGGCATTTTATTCCACCAATGAGAACCTACCTCTGGCTTGTCGTTTACATATTTCTGAGTTCCTTTATGGCAAGGCCTTGGAATTTGCAAAAACTTCAGAACCTGTTGTCTATTCTCTGATCACCCTTTTAGAGGAAGAGTCAGAGATTGTCAAGTTACTAACACACACTCAACATAAGTATAGCGTTCCTCCTGTGAACGTCCCTCCAGTACCTTCCGAGACCAGAATAAGTAAACCTGCCTACCGCAAACCAGTGGTCCCAAGTAACACTTTCCTTTCTAATCAAATGCTAGAAGGGGAAAGATTGTCAGAACTCGAGGAGGATGCCGATGAGGATGAAGGACCTGCATCAATTATCGTGGAGAATGAAAGCTATGTGAACCTGAAGAAGAGGAGTTACAAAAGATACGACAGGCCGGCAAAGTCCTTATTTGCTGAGAACAGTAAGATCTGCAGGCAGTTTCAGATGAAACAGGCTTCCAGACAGTTCCACGCAATTCTGCAAGAAAGACAGTTACTGCCTGCTTGGGAAGAGAGAGAGACCATTCTGAAACTGCTGAGCAAGCACCAAGTGGTTGTCATAAGTGGTATGACTGGATGTGGGAAAACCACACAGATTCCACAGTTTATCCTGGATAATTCTCTGAATGGGCCACCCGAGAGGGTGGCCAACATCATCTGTACCCAACCCCGACGGATCTCTGCAATCTCTGTTGCTGAACGGGTTGCTAAAGAAAGAGCAGAACGGGTGGGTCTGACTGTGGGATACCAGATTCGGCTGGAAAGTGTCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAAGAGCAGAACGGGTGG
59.96
ATGTCATGTGCAGCGTCTGA
60.04
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAAGAGCAGAACGGGTGG
59.96
TGATGTCATGTGCAGCGTCT
60.04
152
PCR template sequence:
ACGGATCTCTGCAATCTCTGTTGCTGAACGGGTTGCTAAAGAAAGAGCAGAACGGGTGGGTCTGACTGTGGGATACCAGATTCGGCTGGAAAGTGTCAAGGCCCTGCGACAGTAACAAAAGCAAAGGAGAGACACGGCCTAAGTGGAAGCCCAAAGCCAAAGTGCCCCTTCAGACGCTGCACATGACATCAGAGAATCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
21
Interacting miRNAs (#binding sites)
mmu-miR-188-3p(2), mmu-miR-1904(2), 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-127-3p(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-802-5p(1), mmu-miR-129-5p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAAAGTGTCAAGGCCCTGCGACAGT
siRNA sets
ACTGTCGCAGGGCCTTGAC, CAGGGCCTTGACACTTTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDHX57_1681_ORF_1
0.9106
0.200284887
0.99985487
1614
ORF sequence:
ATGACATCAGAGAATCAGGAGAAGGTGAAAGCCCTTCTGAGGGATCTGCAGGAACAGGGTGCGGACGCGGGATCCGAAAGAGGCACCTCTGGGGAGGAGGAAGACAGCGAGCCCCAGTGTGGCGAGGAGCAGGGCTGGCCAGCTGGACAAGAGCCTATCTTTCTTCCTGACTGCAGTCCTTGGGAATATATAGGCCCAGAAGAAGTGGAGCCTCCTGTGCCAGAATGTGCAGTCTCACCCTTGGCAGTGCAGAAACTTTCCAGGTACGGCTTCCACACTGAGCACTGTCAGCTGGCCCTGAGGATCTGTGATGGAGACTTAGGGGCGGCACTAGAGCATCTTCTCCGCCAGTGTTTCTCAGAGACGTTTGGAGAGAGGATGGCGCTCTCTGAGGCAGCTGTTTATGTGAGCTTGAATGAGTGTGTGGAGCAGAGACAGGAAGAGACGCTTGCTCTCAAGTCCATCTGCGGAGAAAAATTCATAGAAAGAATTCAGAACAGAGTCTGGACCATTGGATTGGAACTGGATTATTTGACAAACAAATTCTGCAAGTCTAAGCAAAAGGAAAGTAGCAAAAATGTACGGGACACTTCGCCTGAAACCTGTAAATTTTACCTCAAAGGAAATTGTAAATTTGGATCAAAATGCAAATTCAAACATGAAGTGCCCCCACATCAAATGATTGGGAGAGCAGAAAGAAACGTAAATGACCCTCACCTTGACGCTGATGACGACACAACCTTTATGTATGAGCTTCAGATTCGCTTTTCTAAAGACCACAAATACCCCTACCAAGCTCCCCTGGTGGCATTTTATTCCACCAATGAGAACCTACCTCTGGCTTGTCGTTTACATATTTCTGAGTTCCTTTATGGCAAGGCCTTGGAATTTGCAAAAACTTCAGAACCTGTTGTCTATTCTCTGATCACCCTTTTAGAGGAAGAGTCAGAGATTGTCAAGTTACTAACACACACTCAACATAAGTATAGCGTTCCTCCTGTGAACGTCCCTCCAGTACCTTCCGAGACCAGAATAAGTAAACCTGCCTACCGCAAACCAGTGGTCCCAAGTAACACTTTCCTTTCTAATCAAATGCTAGAAGGGGAAAGATTGTCAGAACTCGAGGAGGATGCCGATGAGGATGAAGGACCTGCATCAATTATCGTGGAGAATGAAAGCTATGTGAACCTGAAGAAGAGGAGTTACAAAAGATACGACAGGCCGGCAAAGTCCTTATTTGCTGAGAACAGTAAGATCTGCAGGCAGTTTCAGATGAAACAGGCTTCCAGACAGTTCCACGCAATTCTGCAAGAAAGACAGTTACTGCCTGCTTGGGAAGAGAGAGAGACCATTCTGAAACTGCTGAGCAAGCACCAAGTGGTTGTCATAAGTGGTATGACTGGATGTGGGAAAACCACACAGATTCCACAGTTTATCCTGGATAATTCTCTGAATGGGCCACCCGAGAGGGTGGCCAACATCATCTGTACCCAACCCCGACGGATCTCTGCAATCTCTGTTGCTGAACGGGTTGCTAAAGAAAGAGCAGAACGGGTGGGTCTGACTGTGGGATACCAGATTCGGCTGGAAAGTGTCAAGGCCCTGCGACAGTAA
Peptide sequence:
MTSENQEKVKALLRDLQEQGADAGSERGTSGEEEDSEPQCGEEQGWPAGQEPIFLPDCSPWEYIGPEEVEPPVPECAVSPLAVQKLSRYGFHTEHCQLALRICDGDLGAALEHLLRQCFSETFGERMALSEAAVYVSLNECVEQRQEETLALKSICGEKFIERIQNRVWTIGLELDYLTNKFCKSKQKESSKNVRDTSPETCKFYLKGNCKFGSKCKFKHEVPPHQMIGRAERNVNDPHLDADDDTTFMYELQIRFSKDHKYPYQAPLVAFYSTNENLPLACRLHISEFLYGKALEFAKTSEPVVYSLITLLEEESEIVKLLTHTQHKYSVPPVNVPPVPSETRISKPAYRKPVVPSNTFLSNQMLEGERLSELEEDADEDEGPASIIVENESYVNLKKRSYKRYDRPAKSLFAENSKICRQFQMKQASRQFHAILQERQLLPAWEERETILKLLSKHQVVVISGMTGCGKTTQIPQFILDNSLNGPPERVANIICTQPRRISAISVAERVAKERAERVGLTVGYQIRLESVKALRQ
IRESfinder result
IRESfinder score
0.519640747
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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