top of page
mmu_circActr10_401
Basic information of circular RNA
PanCircBase ID:
mmu_circActr10_401
mm39_Chr. Position ID:
chr12|70990182|71001428|+
Gene name:
Actr10
Transcript:
ENSMUST00000021479.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
4,5,6,7,8
Exon/intron offsets:
0,4043,6295,9541,11210
Genomic length:
11246
Exon/intron sizes in nt:
109,108,68,80,36
Flanking exon/introns:
chr12:70989115-70990182|chr12:71001428-71003046
Splice length:
401
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCATCTGTTGGTGAATCCCAGAGACCGCCGCGTTGTGGTTATCGAGTCGGTGTTATGTCCTTCCCACTTCAGAGAGACTCTGACTCGTGTTCTTTTTAAATATTTTGAGGTTCCATCTGTCCTACTTGCTCCAAGTCATCTGATGGCACTGCTGACGCTTGGAATTAATTCGGCCATGGTCCTGGATTGTGGATATAGGGAAAGCCTGGTGTTGCCTATCTATGAAGGCATCCCAATACTGAATTGCTGGGGAGCACTGCCGTTAGGAGGAAAAGCTCTCCACAAGGAGTTGGAAACTCAGCTGTTGGAACAATGTACTGTTGACACTGGTGCAGCTAAAGGACAGAGCCTTCCCTCAGTGATGGGTTCAGTTCCAGAAGGTGTGCTAGAAGATATTAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTGACACTGGTGCAGCTA
59.53
TGGGAAGGACATAACACCGAC
59.72
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTGACACTGGTGCAGCTA
59.53
GTGGGAAGGACATAACACCGA
59.72
150
PCR template sequence:
CTGTTGGAACAATGTACTGTTGACACTGGTGCAGCTAAAGGACAGAGCCTTCCCTCAGTGATGGGTTCAGTTCCAGAAGGTGTGCTAGAAGATATTAAAGGCATCTGTTGGTGAATCCCAGAGACCGCCGCGTTGTGGTTATCGAGTCGGTGTTATGTCCTTCCCACTTCAGAGAGACTCTGACTCGTGTTCTTTTTAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-34c-5p(2), mmu-miR-34a-5p(2), mmu-miR-34b-5p(2), mmu-miR-200a-3p(1), mmu-miR-199a-5p(1), mmu-miR-101a-3p(1), mmu-miR-532-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAGATATTAAAGGCATCTGTTGGTG
siRNA sets
AACAGATGCCTTTAATATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACTR10_401_ORF_1
0.8769
0.073559303
0.204185239
273
ORF sequence:
ATGGCACTGCTGACGCTTGGAATTAATTCGGCCATGGTCCTGGATTGTGGATATAGGGAAAGCCTGGTGTTGCCTATCTATGAAGGCATCCCAATACTGAATTGCTGGGGAGCACTGCCGTTAGGAGGAAAAGCTCTCCACAAGGAGTTGGAAACTCAGCTGTTGGAACAATGTACTGTTGACACTGGTGCAGCTAAAGGACAGAGCCTTCCCTCAGTGATGGGTTCAGTTCCAGAAGGTGTGCTAGAAGATATTAAAGGCATCTGTTGGTGA
Peptide sequence:
MALLTLGINSAMVLDCGYRESLVLPIYEGIPILNCWGALPLGGKALHKELETQLLEQCTVDTGAAKGQSLPSVMGSVPEGVLEDIKGICW
IRESfinder result
IRESfinder score
0.56138167
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page