top of page
mmu_circAtp9b_586
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp9b_586
mm39_Chr. Position ID:
chr18|80887741|80952920|-
Gene name:
Atp9b
Transcript:
ENSMUST00000091790.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
10,9,8,7,6,5,4
Exon/intron offsets:
0,2645,14017,25215,32788,47288,65065
Genomic length:
65179
Exon/intron sizes in nt:
7,68,19,55,25,91,09,110
Flanking exon/introns:
chr18:80879646-80887741|chr18:80952920-80956011
Splice length:
586
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTTTGTATGAACAATTCAAGTTTTTCTTGAATCTCTATTTTCTGGTAGTGTCCTGCTCACAGTTTGTACCAGCATTGAAAATTGGCTACCTCTACACCTACTGGGCTCCTCTGGGATTTGTTTTGGCCGTTACGATTGCACGTGAAGCGATTGATGAATTTCGACGTTTTCAGCGAGACAAGGAAATGAATTCACAGTTATATAGCAAGCTTACAGTAAGAGGTAAAGTTCAAGTTAAGAGCTCAGACATACAAGTTGGAGACCTCATCATAGTGGAAAAGAACCAAAGAATTCCATCAGATATGGTATTTCTTAGAACTTCAGAGAAAGCAGGTTCATGTTTTATCCGCACGGACCAGCTAGATGGTGAGACTGACTGGAAGCTGAAGGTGGCGGTGAGCTGCACACAACGGCTGCCAGCCCTCGGGGACCTTTTTTCTATCAGTGCCTATGTTTATGCTCAGAAGCCACAACTGGATATTCATAGCTTTGAAGGAACATTTACCAGGGAAGACAGTGATCCTCCCATTCATGAGAGTCTCAGCATAGAGAACACTCTGTGGGCAAGCACTATTGTTGCATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGAAGACAGTGATCCTCCC
59.17
TGTGAGCAGGACACTACCAG
59.03
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGAAGACAGTGATCCTCCC
59.17
CTGTGAGCAGGACACTACCA
59.03
141
PCR template sequence:
AGCTTTGAAGGAACATTTACCAGGGAAGACAGTGATCCTCCCATTCATGAGAGTCTCAGCATAGAGAACACTCTGTGGGCAAGCACTATTGTTGCATCAGGTTTTGTATGAACAATTCAAGTTTTTCTTGAATCTCTATTTTCTGGTAGTGTCCTGCTCACAGTTTGTACCAGCATTGAAAATTGGCTACCTCTACACCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-let-7a-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-let-7d-5p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-98-5p(1), mmu-miR-452-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTGTTGCATCAGGTTTTGTATGAAC
siRNA sets
TTCATACAAAACCTGATGC, ATACAAAACCTGATGCAAC, TACAAAACCTGATGCAACA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP9B_586_ORF_1
0.8655
0.024719651
0.355714736
411
ORF sequence:
ATGAATTCACAGTTATATAGCAAGCTTACAGTAAGAGGTAAAGTTCAAGTTAAGAGCTCAGACATACAAGTTGGAGACCTCATCATAGTGGAAAAGAACCAAAGAATTCCATCAGATATGGTATTTCTTAGAACTTCAGAGAAAGCAGGTTCATGTTTTATCCGCACGGACCAGCTAGATGGTGAGACTGACTGGAAGCTGAAGGTGGCGGTGAGCTGCACACAACGGCTGCCAGCCCTCGGGGACCTTTTTTCTATCAGTGCCTATGTTTATGCTCAGAAGCCACAACTGGATATTCATAGCTTTGAAGGAACATTTACCAGGGAAGACAGTGATCCTCCCATTCATGAGAGTCTCAGCATAGAGAACACTCTGTGGGCAAGCACTATTGTTGCATCAGGTTTTGTATGA
Peptide sequence:
MNSQLYSKLTVRGKVQVKSSDIQVGDLIIVEKNQRIPSDMVFLRTSEKAGSCFIRTDQLDGETDWKLKVAVSCTQRLPALGDLFSISAYVYAQKPQLDIHSFEGTFTREDSDPPIHESLSIENTLWASTIVASGFV
IRESfinder result
IRESfinder score
0.761880572
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page