top of page
mmu_ciRasa1_1136
Basic information of circular RNA
PanCircBase ID:
mmu_ciRasa1_1136
mm39_Chr. Position ID:
chr13|85372464|85373600|-
Gene name:
Rasa1
Transcript:
ENSMUST00000109552.3
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
18
Exon/intron offsets:
0
Genomic length:
1136
Exon/intron sizes in nt:
1136
Flanking exon/introns:
chr13:85372437-85373600
Splice length:
1136
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGAATTTATAGTTTTATTCTTTGCAGCAAATAGCATATTTTAATGAGAACTTTAAAAAATGACATCTTTAGGAAAGTACATCATTTCTGAGATGTATCAGTACAATCGTGTTCTCTAGTATATTTATAATCCACCTCTCCTTGAGCACATACAAAGCTCTTTGAGCATTTCTTTTATTATATTAATGACCAAACATACTTTGCCTTGAGAGAATGTGTATAACGTTAATTGAACACTTTTCTAGAGACTTTTGTACGTGTTGAGTATCTGTTATTGGAAAAAAAGAAGTATTTTAAAACATTTGGATGATTTCATATATACAATAAAGTATCCTGGGAATGGAACCTAAGTCTATGACTGAAGTTAATTTTACATGAATTCTTGGAGGCTTGTGTTATGGTTTGCACATCATGTGAAGTTGGATATGGAATTTCCCACATGGATAATGCCATGTCAGCAACCAAAGTCAAACTTCAAGAGGGCTTACCTTGAGTAATATGTTGTAACATCTTCTCTCTAGAGGGATTTCTGGGTTATTTTATAGAAGATGGGGATTAAAAGAAGATGAAATAATCTTTTAAAGATGATTAAGGTTGCACTGTGAGTTTATAGGCAGCCCATACCATTGAGTAGAATCACTCGTACATGACTGTTCTACTTCATGAATGCTACAGAGCAATTTCAAAGAAAGACAGTATACATTTTTAGGCTTGATATAGTGTCAATAAAATAACGAAATACTTTTCAACACTTGGAGCTGTAAAATGTTAATTGTGCCACAACAAAATGAGTGACTTAAGTTGAGGGTAATCCCACAATTACCCTTACTATGAAAGCTGACATAGCTTTCATATTTGTAGATAAATCTAGCAGACCAGAACACTTGGATGGTGGGGAGGAGGGGTGTACTTGAAGGGTCATGATTTTACTTAATATATTTTGATTATTTTCCTTAGCCACTAAGTTGTACCTCATTAAAAACAGCTTTTCTTCTTATATAAACAGAACTGAGTAGTTAAATATTAGTTGAGAAACTAATTTTAGCAAACTTACTGCATTTGTATATGTGGAACAGGTAACAGCTTTGAAAACGACTACTCACTTATCACAATTTACTTGAAATTCAATCATCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGAACAGGTAACAGCTTTG
59.05
TCTCAGAAATGATGTACTTTCCT
55.07
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGAACAGGTAACAGCTT
56.98
TCTCAGAAATGATGTACTTTCCT
55.07
163
PCR template sequence:
ACTAATTTTAGCAAACTTACTGCATTTGTATATGTGGAACAGGTAACAGCTTTGAAAACGACTACTCACTTATCACAATTTACTTGAAATTCAATCATCAGTAAGAATTTATAGTTTTATTCTTTGCAGCAAATAGCATATTTTAATGAGAACTTTAAAAAATGACATCTTTAGGAAAGTACATCATTTCTGAGATGTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-19b-3p(1), mmu-miR-26a-5p(1), mmu-miR-130a-3p(1), mmu-miR-19a-3p(1), mmu-miR-320-3p(1), mmu-miR-128-3p(1), mmu-miR-26b-5p(1), mmu-miR-301b-3p(1), mmu-miR-297a-5p(1), mmu-miR-301a-3p(1), mmu-miR-325-3p(1), mmu-miR-802-5p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AATTCAATCATCAGTAAGAATTTATA
siRNA sets
TATAAATTCTTACTGATGA, AATTCTTACTGATGATTGA, ATAAATTCTTACTGATGAT
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
0.884946481
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page