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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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