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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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