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mmu_circDcaf8_1033
Basic information of circular RNA
PanCircBase ID:
mmu_circDcaf8_1033
mm39_Chr. Position ID:
chr1|171976815|172003144|+
Gene name:
Dcaf8
Transcript:
ENSMUST00000193638.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,16599,23080,24694,26234
Genomic length:
26329
Exon/intron sizes in nt:
73,71,653,141,95
Flanking exon/introns:
chr1:171975735-171976815|chr1:172003144-172007473
Splice length:
1033
Other database IDs:
circAtlas: mmu-Dcaf8_0012
circBase: hsa_circ_0014879, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_28413
Human Ortholog IDs:
Mature spliced Sequence:
TTCTTCAGCGAACCTCCAGACCAGTTTTCTCAGGATCTTGGGCCTGACTTCGGTCGGCGATAAAAGCAGGAAGGCTGGCGACCATATTTAAGATGTCCAATAAACGTCCCAACACGACAGATGGGAGAACAGATTTAGCTAATGGAAGTCTGTCCAGCAGCCCAGAGGAGATGTCTGGAGCTGAAGAGGGGAGGGAAACATCCTCAGGGATTGAAGTAGAGGCATCAGACCTGAGTCTCAGCTTGACTGGGGATGACGGTGGCCCCAACCGCACCAGCACGGAAAGTCGTGGCACAGACACAGAGAGCTCAGGGGAAGAAAAGGACTCTGACAGCATGGAGGACACGGGCCATTATTCCATCAATGATGAAAGCCGAGGTCATGGCCACTCAGACGAAGAGGACGAGGAACAACCTCGGCACCGTGGACAGCGCAAACGGGCCAGCCGTGACCAGGATTCATCAGATGATGAGCGAGCCCTGGAAGACTGGGTATCTTCAGAGACAACAGCCTTACCCCGACCTCGCTGGCAAGCCCTTCCTGCGCTTCGGGAGCGGGAACTGGGTTCCAGTGCCCGCTTTGTGTACGAGGCTTGTGGAGCTAGAGTCTTTGTACAGCGTTTCCGTTTGCAGCACGGGCTTGAGGGCCATACTGGTTGTGTCAATACCTTGCACTTTAACCAGCGTGGTACCTGGCTGGCCAGTGGCAGTGATGACCTGAAGGTGGTGGTGTGGGATTGGGTGCGGCGGCAGCCAGTACTGGACTTTGAGAGTGGCCACAAAAGTAATGTCTTCCAGGCCAAGTTCCTTCCTAACAGTGGTGACTCCACCCTGGCTATGTGTGCCCGGGATGGACAGGTCCGAGTCGCAGAGCTGTCTGCTACACAGTGCTGCAAGAACACCAAGCGTGTGGCCCAGCACAAGGGGGCATCTCACAAGTTAGCCCTAGAACCAGACTCCCCCTGCACGTTCCTGTCAGCTGGTGAAGATGCCGTCGTCTTCACCATTGACCTGAGACAAGACCGGCCAGCTTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGTTCCTGTCAGCTGGTGAA
60.25
AATATGGTCGCCAGCCTTCC
60.18
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCAGCTGGTGAAGATGCC
60.32
AATATGGTCGCCAGCCTTCC
60.18
149
PCR template sequence:
ACAAGTTAGCCCTAGAACCAGACTCCCCCTGCACGTTCCTGTCAGCTGGTGAAGATGCCGTCGTCTTCACCATTGACCTGAGACAAGACCGGCCAGCTTCTTCTTCAGCGAACCTCCAGACCAGTTTTCTCAGGATCTTGGGCCTGACTTCGGTCGGCGATAAAAGCAGGAAGGCTGGCGACCATATTTAAGATGTCCAA
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-351-5p(2), mmu-miR-7b-5p(1), mmu-miR-130a-3p(1), mmu-miR-328-3p(1), mmu-miR-7a-5p(1), mmu-miR-125a-5p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-324-3p(1), mmu-miR-301a-3p(1), mmu-miR-680(1), mmu-miR-207(1), mmu-miR-670-5p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCGGCCAGCTTCTTCTTCAGCGAAC
siRNA sets
TGAAGAAGAAGCTGGCCGG, CTGAAGAAGAAGCTGGCCG, GAAGAAGAAGCTGGCCGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDCAF8_1033_ORF_1
0.9695
0.340276623
0.995274339
1032
ORF sequence:
ATGTCCAATAAACGTCCCAACACGACAGATGGGAGAACAGATTTAGCTAATGGAAGTCTGTCCAGCAGCCCAGAGGAGATGTCTGGAGCTGAAGAGGGGAGGGAAACATCCTCAGGGATTGAAGTAGAGGCATCAGACCTGAGTCTCAGCTTGACTGGGGATGACGGTGGCCCCAACCGCACCAGCACGGAAAGTCGTGGCACAGACACAGAGAGCTCAGGGGAAGAAAAGGACTCTGACAGCATGGAGGACACGGGCCATTATTCCATCAATGATGAAAGCCGAGGTCATGGCCACTCAGACGAAGAGGACGAGGAACAACCTCGGCACCGTGGACAGCGCAAACGGGCCAGCCGTGACCAGGATTCATCAGATGATGAGCGAGCCCTGGAAGACTGGGTATCTTCAGAGACAACAGCCTTACCCCGACCTCGCTGGCAAGCCCTTCCTGCGCTTCGGGAGCGGGAACTGGGTTCCAGTGCCCGCTTTGTGTACGAGGCTTGTGGAGCTAGAGTCTTTGTACAGCGTTTCCGTTTGCAGCACGGGCTTGAGGGCCATACTGGTTGTGTCAATACCTTGCACTTTAACCAGCGTGGTACCTGGCTGGCCAGTGGCAGTGATGACCTGAAGGTGGTGGTGTGGGATTGGGTGCGGCGGCAGCCAGTACTGGACTTTGAGAGTGGCCACAAAAGTAATGTCTTCCAGGCCAAGTTCCTTCCTAACAGTGGTGACTCCACCCTGGCTATGTGTGCCCGGGATGGACAGGTCCGAGTCGCAGAGCTGTCTGCTACACAGTGCTGCAAGAACACCAAGCGTGTGGCCCAGCACAAGGGGGCATCTCACAAGTTAGCCCTAGAACCAGACTCCCCCTGCACGTTCCTGTCAGCTGGTGAAGATGCCGTCGTCTTCACCATTGACCTGAGACAAGACCGGCCAGCTTCTTCTTCAGCGAACCTCCAGACCAGTTTTCTCAGGATCTTGGGCCTGACTTCGGTCGGCGATAAAAGCAGGAAGGCTGGCGACCATATTTAA
Peptide sequence:
MSNKRPNTTDGRTDLANGSLSSSPEEMSGAEEGRETSSGIEVEASDLSLSLTGDDGGPNRTSTESRGTDTESSGEEKDSDSMEDTGHYSINDESRGHGHSDEEDEEQPRHRGQRKRASRDQDSSDDERALEDWVSSETTALPRPRWQALPALRERELGSSARFVYEACGARVFVQRFRLQHGLEGHTGCVNTLHFNQRGTWLASGSDDLKVVVWDWVRRQPVLDFESGHKSNVFQAKFLPNSGDSTLAMCARDGQVRVAELSATQCCKNTKRVAQHKGASHKLALEPDSPCTFLSAGEDAVVFTIDLRQDRPASSSANLQTSFLRILGLTSVGDKSRKAGDHI
IRESfinder result
IRESfinder score
0.335444635
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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