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mmu_circAdamts18_500
Basic information of circular RNA
PanCircBase ID:
mmu_circAdamts18_500
mm39_Chr. Position ID:
chr8|114463312|114465558|-
Gene name:
Adamts18
Transcript:
ENSMUST00000093113.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
16,15,14
Exon/intron offsets:
0,857,2115
Genomic length:
2246
Exon/intron sizes in nt:
24,51,24,131
Flanking exon/introns:
chr8:114441124-114463312|chr8:114465558-114469668
Splice length:
500
Other database IDs:
CIRCpedia: MMU_CIRCpedia_3575, circAtlas: mmu-Adamts18_0011
Human Ortholog IDs:
Mature spliced Sequence:
AGGAAGATCGATGTAAACTCTACTGCAAGGCGGAGAACTTTGAGTTTTTCTTTGCCATGTCTGGCAAGGTGAAAGATGGGACGCCTTGTTCCCCACACAGAAATGACGTCTGCATCGATGGGATTTGTGAACTGGTGGGATGTGACCATGAGCTTGGCTCTAAGGCGGTTTCTGATGCATGTGGTGTTTGCAAAGGCGATAACTCAACTTGCAAGTTTTATAAGGGCCTGTACCTCAGTCAGCACAAAGCAAATGAGTATTACCCTGTGGTCACCATCCCCGCTGGGGCCCGAAGCATTGAGATTCAGGAGTTGCAGCTTTCTTCCAGCTATCTTGCTGTTCGAAGCCTCAGTCAAAAGTATTACCTCACAGGGGGCTGGAGCATCGACTGGCCAGGGGACTTCACCTTCGCAGGGACCACGTTTGAATACCAGCGTTCCTTTAACCGCCCTGAACGACTGTATGCACCAGGACCCACGAATGAGACGCTGGTCTTTGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTAACCGCCCTGAACGACTG
60.32
GGCGTCCCATCTTTCACCTT
60.32
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTAACCGCCCTGAACGACTG
60.32
AAGGCGTCCCATCTTTCACC
60.32
146
PCR template sequence:
CTTCACCTTCGCAGGGACCACGTTTGAATACCAGCGTTCCTTTAACCGCCCTGAACGACTGTATGCACCAGGACCCACGAATGAGACGCTGGTCTTTGAAAGGAAGATCGATGTAAACTCTACTGCAAGGCGGAGAACTTTGAGTTTTTCTTTGCCATGTCTGGCAAGGTGAAAGATGGGACGCCTTGTTCCCCACACAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-31-5p(1), mmu-miR-182-5p(1), mmu-miR-484(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTGGTCTTTGAAAGGAAGATCGATG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADAMTS18_500_ORF_1
0.8343
0.192463543
0.689015314
516
ORF sequence:
ATGTCTGGCAAGGTGAAAGATGGGACGCCTTGTTCCCCACACAGAAATGACGTCTGCATCGATGGGATTTGTGAACTGGTGGGATGTGACCATGAGCTTGGCTCTAAGGCGGTTTCTGATGCATGTGGTGTTTGCAAAGGCGATAACTCAACTTGCAAGTTTTATAAGGGCCTGTACCTCAGTCAGCACAAAGCAAATGAGTATTACCCTGTGGTCACCATCCCCGCTGGGGCCCGAAGCATTGAGATTCAGGAGTTGCAGCTTTCTTCCAGCTATCTTGCTGTTCGAAGCCTCAGTCAAAAGTATTACCTCACAGGGGGCTGGAGCATCGACTGGCCAGGGGACTTCACCTTCGCAGGGACCACGTTTGAATACCAGCGTTCCTTTAACCGCCCTGAACGACTGTATGCACCAGGACCCACGAATGAGACGCTGGTCTTTGAAAGGAAGATCGATGTAAACTCTACTGCAAGGCGGAGAACTTTGAGTTTTTCTTTGCCATGTCTGGCAAGGTGA
Peptide sequence:
MSGKVKDGTPCSPHRNDVCIDGICELVGCDHELGSKAVSDACGVCKGDNSTCKFYKGLYLSQHKANEYYPVVTIPAGARSIEIQELQLSSSYLAVRSLSQKYYLTGGWSIDWPGDFTFAGTTFEYQRSFNRPERLYAPGPTNETLVFERKIDVNSTARRRTLSFSLPCLAR
IRESfinder result
IRESfinder score
0.504805797
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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