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mmu_circAdamts18_822
Basic information of circular RNA
PanCircBase ID:
mmu_circAdamts18_822
mm39_Chr. Position ID:
chr8|114463312|114477881|-
Gene name:
Adamts18
Transcript:
ENSMUST00000093113.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
16,15,14,13,12
Exon/intron offsets:
0,857,2115,6356,14420
Genomic length:
14569
Exon/intron sizes in nt:
24,51,24,13,11,73,149
Flanking exon/introns:
chr8:114441124-114463312|chr8:114477881-114481195
Splice length:
822
Other database IDs:
CIRCpedia: MMU_CIRCpedia_3576, circAtlas: mmu-Adamts18_0001
circAtlas: hsa-ADAMTS18_0002, CIRCpedia: HSA_CIRCpedia_18813
Human Ortholog IDs:
Mature spliced Sequence:
TGGTGTCGGCAAGGCCAGTGTGTAAAGCTCGGAGAACTAGGGCCCCGGCCCATCCATGGCCAGTGGTCTGCCTGGTCGAAGTGGTCAGAATGTTCTCGCACTTGCGGCGGAGGAGTCAAGTTCCAGGAGAGACACTGTAGTAACCCCAAGCCTCAGTATGGTGGCAAGTACTGTCCAGGATCTAGCCGCATCTACAAGCTGTGCAACATTAACCCTTGTCCTGAGAATAGCTTGGATTTCCGTGCCCAACAGTGTGCAGAGTATAACAACAAGCCCTTCCGTGGATGGTTGTACCGTTGGAAACCCTACACAAAAGTTGAAGAGGAAGATCGATGTAAACTCTACTGCAAGGCGGAGAACTTTGAGTTTTTCTTTGCCATGTCTGGCAAGGTGAAAGATGGGACGCCTTGTTCCCCACACAGAAATGACGTCTGCATCGATGGGATTTGTGAACTGGTGGGATGTGACCATGAGCTTGGCTCTAAGGCGGTTTCTGATGCATGTGGTGTTTGCAAAGGCGATAACTCAACTTGCAAGTTTTATAAGGGCCTGTACCTCAGTCAGCACAAAGCAAATGAGTATTACCCTGTGGTCACCATCCCCGCTGGGGCCCGAAGCATTGAGATTCAGGAGTTGCAGCTTTCTTCCAGCTATCTTGCTGTTCGAAGCCTCAGTCAAAAGTATTACCTCACAGGGGGCTGGAGCATCGACTGGCCAGGGGACTTCACCTTCGCAGGGACCACGTTTGAATACCAGCGTTCCTTTAACCGCCCTGAACGACTGTATGCACCAGGACCCACGAATGAGACGCTGGTCTTTGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTAACCGCCCTGAACGACTG
60.32
TTCTGACCACTTCGACCAGG
59.32
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTTAACCGCCCTGAACGA
60.32
TTCTGACCACTTCGACCAGG
59.32
152
PCR template sequence:
CTTCACCTTCGCAGGGACCACGTTTGAATACCAGCGTTCCTTTAACCGCCCTGAACGACTGTATGCACCAGGACCCACGAATGAGACGCTGGTCTTTGAATGGTGTCGGCAAGGCCAGTGTGTAAAGCTCGGAGAACTAGGGCCCCGGCCCATCCATGGCCAGTGGTCTGCCTGGTCGAAGTGGTCAGAATGTTCTCGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-31-5p(1), mmu-miR-101a-3p(1), mmu-miR-139-5p(1), mmu-miR-182-5p(1), mmu-miR-484(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTGGTCTTTGAATGGTGTCGGCAAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADAMTS18_822_ORF_1
0.8595
0.259506653
0.998519203
1266
ORF sequence:
ATGTCTGGCAAGGTGAAAGATGGGACGCCTTGTTCCCCACACAGAAATGACGTCTGCATCGATGGGATTTGTGAACTGGTGGGATGTGACCATGAGCTTGGCTCTAAGGCGGTTTCTGATGCATGTGGTGTTTGCAAAGGCGATAACTCAACTTGCAAGTTTTATAAGGGCCTGTACCTCAGTCAGCACAAAGCAAATGAGTATTACCCTGTGGTCACCATCCCCGCTGGGGCCCGAAGCATTGAGATTCAGGAGTTGCAGCTTTCTTCCAGCTATCTTGCTGTTCGAAGCCTCAGTCAAAAGTATTACCTCACAGGGGGCTGGAGCATCGACTGGCCAGGGGACTTCACCTTCGCAGGGACCACGTTTGAATACCAGCGTTCCTTTAACCGCCCTGAACGACTGTATGCACCAGGACCCACGAATGAGACGCTGGTCTTTGAATGGTGTCGGCAAGGCCAGTGTGTAAAGCTCGGAGAACTAGGGCCCCGGCCCATCCATGGCCAGTGGTCTGCCTGGTCGAAGTGGTCAGAATGTTCTCGCACTTGCGGCGGAGGAGTCAAGTTCCAGGAGAGACACTGTAGTAACCCCAAGCCTCAGTATGGTGGCAAGTACTGTCCAGGATCTAGCCGCATCTACAAGCTGTGCAACATTAACCCTTGTCCTGAGAATAGCTTGGATTTCCGTGCCCAACAGTGTGCAGAGTATAACAACAAGCCCTTCCGTGGATGGTTGTACCGTTGGAAACCCTACACAAAAGTTGAAGAGGAAGATCGATGTAAACTCTACTGCAAGGCGGAGAACTTTGAGTTTTTCTTTGCCATGTCTGGCAAGGTGAAAGATGGGACGCCTTGTTCCCCACACAGAAATGACGTCTGCATCGATGGGATTTGTGAACTGGTGGGATGTGACCATGAGCTTGGCTCTAAGGCGGTTTCTGATGCATGTGGTGTTTGCAAAGGCGATAACTCAACTTGCAAGTTTTATAAGGGCCTGTACCTCAGTCAGCACAAAGCAAATGAGTATTACCCTGTGGTCACCATCCCCGCTGGGGCCCGAAGCATTGAGATTCAGGAGTTGCAGCTTTCTTCCAGCTATCTTGCTGTTCGAAGCCTCAGTCAAAAGTATTACCTCACAGGGGGCTGGAGCATCGACTGGCCAGGGGACTTCACCTTCGCAGGGACCACGTTTGAATACCAGCGTTCCTTTAACCGCCCTGAACGACTGTATGCACCAGGACCCACGAATGAGACGCTGGTCTTTGAA
Peptide sequence:
MSGKVKDGTPCSPHRNDVCIDGICELVGCDHELGSKAVSDACGVCKGDNSTCKFYKGLYLSQHKANEYYPVVTIPAGARSIEIQELQLSSSYLAVRSLSQKYYLTGGWSIDWPGDFTFAGTTFEYQRSFNRPERLYAPGPTNETLVFEWCRQGQCVKLGELGPRPIHGQWSAWSKWSECSRTCGGGVKFQERHCSNPKPQYGGKYCPGSSRIYKLCNINPCPENSLDFRAQQCAEYNNKPFRGWLYRWKPYTKVEEEDRCKLYCKAENFEFFFAMSGKVKDGTPCSPHRNDVCIDGICELVGCDHELGSKAVSDACGVCKGDNSTCKFYKGLYLSQHKANEYYPVVTIPAGARSIEIQELQLSSSYLAVRSLSQKYYLTGGWSIDWPGDFTFAGTTFEYQRSFNRPERLYAPGPTNETLVFE
IRESfinder result
IRESfinder score
0.460063745
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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