top of page
mmu_ciIds_1767
Basic information of circular RNA
PanCircBase ID:
mmu_ciIds_1767
mm39_Chr. Position ID:
chrX|69404815|69406582|-
Gene name:
Ids
Transcript:
ENSMUST00000101509.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
1767
Exon/intron sizes in nt:
1767
Flanking exon/introns:
chrX:69404737-69406582
Splice length:
1767
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTACTGTTCAATTACTAAAACCTGGGCCTTTTGTTTCTATGCTTCAATACTAGGTTGGGACTATCCTTGTAGTGGCTTTTCCCTTGTCAGGCTTAGGTAACTTGTTCATTGATGCCATTCTATGAAAAACAACAAAACAAAGCATTTCTTTAACCTAGTTTCATATTCACATTCTAAATGAAAAAGAATAGAAAGAAACAGATTTCCTTTTAGAAGTTGGAGGTAATGTCGTCAGATTCATGTAGCTGCTGTCGGAGAGGCAGGTTTGGTGTCAGTTCAGCTCTGGGCTTGACCACAGGGTGGTCCTTAAAGCTCTGGTCTGGGCCTTGCAGGATGCCTGTCTGTAAAGTTTGGGGGTGAGGACCTCAAATGTCCAGAGGTATTGTGTGGACTTGATGTCCGAGTATGGGCTTCAGCGTGGTGAAAGGCACTGCTTTCTCTGTGAGGAATGTTAGGAAGAGGACATCAGCTGGGTGTCAAATTCTGACTTTGAATACTACCTGATAAAGTAGTTATTTACTTCCTAAATGAAGAATAAATAACACTTTAAAACAGATAATAGGATCACATGATCCCTTGATTTCAAGATTTTTAAGAAACCAAAGAATGTAAGTGTGTAATTGAACCACCCTGGGGAAAGCTGTGTTTGATGTGGCAAACAAAAATTTTCTTGTGTTTTGGACATAGTGTTATTCTGATTTGTGGCTATGTTATTTTTATAATTTTACACTATGAGTGAGAGTAAATATTTCGCATTATATTACACTCCTCAAAAATTCATTTTTAATGACAGCATAGTAGTCTGGCATAACAGGCTTCTGGCTTTTTACTGATGTGGAAGCGGAGTTGACCTCACTGGGAAATAGCATCAGGGATGTGGGCACTTGGTCCTGGTCTAAGTGCTGCCACTTCTTAGCCATGTGGCTGTCTTTGGCTAAGTTTTTCTTCTTCTTTGAGTCTCACATTCCTTCTCTGGAATGCTGGGGCTGTAGTTTTCTTGATGCCTAACGAAGGGAACATGCTAGTAGGGACATCCATGAGTGTGAAGTGTGTTCAAATGCTAGAGCTGTGACCATGACGGTACTTCTCACCAAAGGAGACAGCTTGGGCGTCTCTAAGAGTTCTTTGTACATCATTATGGCTCAGGAGCTTTCTTCTAGAACCTACCAGGCAGTCCAGATTGAAAGTAGTAGTCAGTTTTTAAAAAGCAGGCCCAGTCTTGAAAAATAATCTATCAGAAATCATATTGTGTGGCTGAAAGCTGATTATCACTTGAACTACCTAGTTGGTACAGCATGGCTTAACTGAGGATATCTGGAGGGAAGTGAGTATTTTCTAGAGAAGAGATTATACTTTGGGAAGTGAAACTAAACAAGGCCTCTCCGATGTTCCTTGATCTCTTTCCCGATAACTAGATTTAGGGATAAGGTTTTCTGTTTCTTTTTTTCTTTTTTGGTTTTTCGACGAGACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTGGAACTCACTTTATGGACCAGGCTGGCCTTGAACTCAGAAATCCGCCTGCCTCTGCCTCTGCTGGGATTAAAGGCGTGCGCCACCACGCCCTGTGGTTCTCTGTTTCTTATAGATCGCCCACTTCCAAGGCTTAGTAACTGGGAAGTTAGATGCTAATTACTAAAATCATGGGCAGTTGATCTTAATGGAAACATTATCTATCTTGCCGTTCTGATTTTATAGGTGAGGAAACTGAACCCCAAAGAGGGGAGGAGCTACTTGCATAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGTGAGGAAACTGAACCCC
59.23
AAGCCTGACAAGGGAAAAGC
58.67
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGAGGAAACTGAACCCCA
59.52
ACCTAAGCCTGACAAGGGAA
58.26
143
PCR template sequence:
CATGGGCAGTTGATCTTAATGGAAACATTATCTATCTTGCCGTTCTGATTTTATAGGTGAGGAAACTGAACCCCAAAGAGGGGAGGAGCTACTTGCATAGGTACTGTTCAATTACTAAAACCTGGGCCTTTTGTTTCTATGCTTCAATACTAGGTTGGGACTATCCTTGTAGTGGCTTTTCCCTTGTCAGGCTTAGGTAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-196a-5p(2), mmu-miR-9-5p(1), mmu-miR-221-3p(1), mmu-miR-122-5p(1), mmu-miR-298-5p(1), mmu-miR-709(1), mmu-miR-339-5p(1), mmu-miR-214-3p(1), mmu-miR-384-3p(1), mmu-miR-673-5p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTACTTGCATAGGTACTGTTCAATT
siRNA sets
AATTGAACAGTACCTATGC, ATTGAACAGTACCTATGCA, AACAGTACCTATGCAAGTA
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
0.819714443
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page