top of page
mmu_ciMarf1_527
Basic information of circular RNA
PanCircBase ID:
mmu_ciMarf1_527
mm39_Chr. Position ID:
chr16|13934619|13935146|-
Gene name:
Marf1
Transcript:
ENSMUST00000090300.6
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
23
Exon/intron offsets:
0
Genomic length:
527
Exon/intron sizes in nt:
527
Flanking exon/introns:
chr16:13933914-13935146
Splice length:
527
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGTGTTTTCCTCAGCTTCTGGGAAAGTTGTCTTCCTGAAAAGCCATTGCTGATTCCTGATCAGAGATGTAAGGTGTCACCCGAGTGCTGCCAGATAAGATAAATGATTTTAGTGTTTCTCAGTGACTTTTATAAACCTTTATTCCTGTGTGCCAAGTAAGTTAGTTTCAGGCCTTCCTTGTAGGAATGTGGTCAGTGGTCACCTAACCAGACAGGACACCTAAGCAGATGCCCTGAGTGTAATGTAGCCAGAACTGCGTAACTGTGACCCCTGTGCTCAGTGGATATAGAGAATGGCCCAGGCAAGGCCCACTTCCTGAGCATAGCAGTCTTGGAGGGGCAGTATCACAGGTGTCTGTGAGCTACTGTATAGCAGAAAGGCATAGGCTGTCGTGGTAGGTGATGTGACATGCACGATGAAGAATAGCCAGCAGCTGTGAGAGGCAATGAAACTGTTCTGGGAGATTGCTGCAGAAAAATAAAAGTGAAAAGTGCAAGTGCTAGAGCCTAGAGTGGGAGTTCTTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTCTGGGAGATTGCTGCA
59.6
GCACTCGGGTGACACCTTAC
60.67
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTCTGGGAGATTGCTGCA
59.6
CACTCGGGTGACACCTTACA
59.32
161
PCR template sequence:
AGCCAGCAGCTGTGAGAGGCAATGAAACTGTTCTGGGAGATTGCTGCAGAAAAATAAAAGTGAAAAGTGCAAGTGCTAGAGCCTAGAGTGGGAGTTCTTCGTAGGTGTTTTCCTCAGCTTCTGGGAAAGTTGTCTTCCTGAAAAGCCATTGCTGATTCCTGATCAGAGATGTAAGGTGTCACCCGAGTGCTGCCAGATAA
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-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-221-3p(1), mmu-miR-135a-5p(1), mmu-miR-222-3p(1), mmu-miR-680(1), mmu-miR-673-5p(1), mmu-miR-3061-5p(1), mmu-miR-3105-3p(1), mmu-miR-323-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGGGAGTTCTTCGTAGGTGTTTTCC
siRNA sets
AACACCTACGAAGAACTCC, ACACCTACGAAGAACTCCC, AAAACACCTACGAAGAACT
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
0.549631187
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page