top of page
mmu_ciAtp2c1_1023
Basic information of circular RNA
PanCircBase ID:
mmu_ciAtp2c1_1023
mm39_Chr. Position ID:
chr9|105343876|105344899|-
Gene name:
Atp2c1
Transcript:
ENSMUST00000177074.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
1023
Exon/intron sizes in nt:
1023
Flanking exon/introns:
chr9:105343871-105344899
Splice length:
1023
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGATCCGTTCCCCTCCATCGCTGCTGTATAACTTACAGCAGCTTTATAGTTGTGAATCTCGTGAGATTTACTTACAGAGAAAGGAAATAACTGTTTTACAATCTTTTTTTTTTCTTTGAAAATTTACATGTTAAGTTAGATTTTCTATAGTTTTAGTTCTGACTCTTCATCTGATTTTAGGCAAAAGGCTCTGAGAGTAGAGTGAGTGTAGCTTACAGGGCAGCATTTCCTCACTGCTGCGCTGTCGCAGGCACTGGACAGGCAGTAGCTTCTTTGTGGCTGCTGAGCTGCGGCTTCCTCGTTAACAGGAGGCTGATGTTGAAGGTAATCTTGGCCAGCTTAGAAAATTATTAAATGTATAATTACACCCCAAGTGCCAGGGCGTAAGCTATACTCTTTCTTATCAACCCTATAATTTTCCATTTGCTTCCATTGGGGATGACCTCAGGAAATAGCAAGCTCACAGTAGATTATGGCCATTCCTAAGTACCTTTATCTTAAGTTTTAGCAAAGGCTTACTATAGCTTTAAAAAAAAATCTAGTAGCAATTACATTAGTATAAAAAGTTGGATAATTCTATGGCTAGTTTTAACTCGGAAAGTTTGGTGTGCTAAACAAACAAATAGTTGTGAGCAGTGGTTCTCAAGCTTCCCAATGAAGGCATTGCAGGTGATGAGCAGGGCTGTGCGTGTGCCTGTCTAAGGCAGCAGAGCCGAAGCCTGAAGAAGGTGATGAGCAGGGCTGTGCGTGTGCCTGTCTAAGGCAGCAGAACCGAAGCCTGAAGAAGGTGGAACTGTGTTTATGTGTGCCTTGTTTTCTAGATCGATATTTAACTTTCTTTTTCAGAAGGAACTGTTATGTAGCTTTTAAGGAATAACTCCTTTTTTTGTTGCTTAAAAATAAACCGCCTATGGACTCTGGTAATTTTATAGTGATGTCCTTTTTTAAAAAACAAAGCCTTTATTGAGATAAAGCAGAATTGTTATTCATGTAAGAGTATTGACTTGTCTGTGTTTATTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGATAAAGCAGAATTGTTATTCA
55.08
TCCTTTCTCTGTAAGTAAATCTCACGA
59.82
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGATAAAGCAGAATTGTTATTCA
55.08
CCTTTCTCTGTAAGTAAATCTCACGA
58.69
143
PCR template sequence:
GTAATTTTATAGTGATGTCCTTTTTTAAAAAACAAAGCCTTTATTGAGATAAAGCAGAATTGTTATTCATGTAAGAGTATTGACTTGTCTGTGTTTATTTGTAAGATCCGTTCCCCTCCATCGCTGCTGTATAACTTACAGCAGCTTTATAGTTGTGAATCTCGTGAGATTTACTTACAGAGAAAGGAAATAACTGTTTT
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-124-3p(1), mmu-miR-216a-5p(1), mmu-miR-5101(1), mmu-miR-532-5p(1), mmu-miR-1904(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTGTGTTTATTTGTAAGATCCGTTC
siRNA sets
ATCTTACAAATAAACACAG,GATCTTACAAATAAACACA,TCTTACAAATAAACACAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.827813249
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page