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mmu_circAdamts18_827
Basic information of circular RNA
PanCircBase ID:
mmu_circAdamts18_827
mm39_Chr. Position ID:
chr8|114497667|114504594|-
Gene name:
Adamts18
Transcript:
ENSMUST00000093113.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
8,7,6,5,4
Exon/intron offsets:
0,2029,3898,4220,6644
Genomic length:
6927
Exon/intron sizes in nt:
1,06,16,08,41,94,283
Flanking exon/introns:
chr8:114493815-114497667|chr8:114504594-114571486
Splice length:
827
Other database IDs:
circAtlas: mmu-Adamts18_0003
circAtlas: hsa-ADAMTS18_0003
Human Ortholog IDs:
Mature spliced Sequence:
TCAGGTCTGATAAGGACCCGAGACAATGAATTCCTCATCTCACCGCTACCTCAGCTGCTGGCCCAGGAACACAACTATAGCTCGCCTGCAGGCCACCATCCTCACGTCCTGTACAAAAGGACAGCAGAGAAGAGGGTCAGATGGTACCAAGACTACCCTGGCTCCCAGCGGACATATCCTGGTCACTCCCCAAGTCACACTCCCCCTGCCTCCCAGAGCCAAGAGCCAGAGTACAGCCATCGAAGGTGGCAAAAGCGGCATTTTTGTGGACGACGCAAGAAATATGCCCCCAAGCCTCCTGCAGAGGACGCCTATCTACGCTTTGACGAATATGGAGGCACAGGGCGGCCCAGACGGTCAGCTGGAAAGTCACAAAATGGTCTCAATGTGGAGACCCTTGTTGTGGCAGATGCCAAGATGGTGGAGAAGCACGGCAAGGATGACGTCACCACGTACATTCTCACAGTCATGAACATGGTTTCTAGCCTGTTCAAAGATGGGACCATTGGAAGCGACATAAACATTGTGGTTGTGAGCCTAATTCTGCTGGAAGAAGAACCTGAAGGACTGCTGATCAATCACCATGCAGACCAGTCTCTAAACAGCTTCTGTCAGTGGCAGTCAGCTCTTGTGGGAAAGAATGGCAAGAGACACGACCACGCCATCCTCCTCACAGGATTTGACATTTGTTCCTGGAAGAACGAACCATGTGACACACTAGGATTTGCTCCTATCAGTGGCATGTGCAGTAAGTACCGAAGCTGTACCATCAATGAAGACACAGGACTTGGCCTGGCCTTCACCATTGCGCATGAGTCAGGGCACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGACACAGGACTTGGCC
59.89
CCTGCAGGCGAGCTATAGTT
59.61
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGACACAGGACTTGGCCT
59.6
CCTGCAGGCGAGCTATAGTT
59.61
145
PCR template sequence:
CTCCTATCAGTGGCATGTGCAGTAAGTACCGAAGCTGTACCATCAATGAAGACACAGGACTTGGCCTGGCCTTCACCATTGCGCATGAGTCAGGGCACAATCAGGTCTGATAAGGACCCGAGACAATGAATTCCTCATCTCACCGCTACCTCAGCTGCTGGCCCAGGAACACAACTATAGCTCGCCTGCAGGCCACCATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-let-7b-5p(1), mmu-miR-122-5p(1), mmu-let-7c-5p(1), mmu-miR-709(1), mmu-let-7d-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-705(1), mmu-miR-680(1), mmu-miR-1198-5p(1), mmu-miR-190b-5p(1), mmu-miR-574-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTCAGGGCACAATCAGGTCTGATAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADAMTS18_827_ORF_3
1.1604
0.295125845
0.752812014
420
ORF sequence:
ATGGTGGAGAAGCACGGCAAGGATGACGTCACCACGTACATTCTCACAGTCATGAACATGGTTTCTAGCCTGTTCAAAGATGGGACCATTGGAAGCGACATAAACATTGTGGTTGTGAGCCTAATTCTGCTGGAAGAAGAACCTGAAGGACTGCTGATCAATCACCATGCAGACCAGTCTCTAAACAGCTTCTGTCAGTGGCAGTCAGCTCTTGTGGGAAAGAATGGCAAGAGACACGACCACGCCATCCTCCTCACAGGATTTGACATTTGTTCCTGGAAGAACGAACCATGTGACACACTAGGATTTGCTCCTATCAGTGGCATGTGCAGTAAGTACCGAAGCTGTACCATCAATGAAGACACAGGACTTGGCCTGGCCTTCACCATTGCGCATGAGTCAGGGCACAATCAGGTCTGA
Peptide sequence:
MVEKHGKDDVTTYILTVMNMVSSLFKDGTIGSDINIVVVSLILLEEEPEGLLINHHADQSLNSFCQWQSALVGKNGKRHDHAILLTGFDICSWKNEPCDTLGFAPISGMCSKYRSCTINEDTGLGLAFTIAHESGHNQV
IRESfinder result
IRESfinder score
0.39301922
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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