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mmu_ciRc3h1_1854
Basic information of circular RNA
PanCircBase ID:
mmu_ciRc3h1_1854
mm39_Chr. Position ID:
chr1|160793358|160795212|+
Gene name:
Rc3h1
Transcript:
ENSMUST00000161609.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
19
Exon/intron offsets:
0
Genomic length:
1854
Exon/intron sizes in nt:
1854
Flanking exon/introns:
chr1:160793358-160795216
Splice length:
1854
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAAGAAAGGAACAGGAACACTTCTATAGACTTTAACCAGAGAGAGAGATAACTATCATCCTACCGTACACAAAGTATGAATGTTTTGATTCTTAAAAGATCTATTTTTTAAAAAAATAAGAAAATATGAATATATTCATTGGGTTTTTTTCAAGACAGGATTTCTCTATTCAGCCCTGGCTATCTTGGAACTCGCTCTGTAGACCTGGCTGGCCTTTAATTCAAGGCATATATCACCACTGCTCAGCAGGAGAAAAGAATATATTTTTACTAAATCTAGAATTAAAATTTTACTTTAGGAGTTAGAGTAGGATATAGCTACGGGCACTGGAGAGGCTGAGGTAGGAAAAGAGGAATTTGAGGTTAGTCTGGGCTACAAAGTGAGACTATCAAAACACGTGTATACACAAAACTTAGCACTTTACTGGGGCTCAGTACATTTTCTGATTACATTTTCTTCTCATTGCTTTAAGTGTGGTCTTATGCTTTTGACTTATAAAACATAATATATAGCTCATTTAATCATTTTTTAAAAATGATTAAAAGCCAACCTACTGCCCATTTTATTGCTACTGTTTTTGTTTCATTTTCATGCTGACTATTGAGCTCAGACCCTCACAAATTAGCACATATTTTTTACCACTAAGCTGTATTCCAGGGTTATGTTCCCCCCTTTCAGTTATGTACAAAACACTTAAATTTGCTAGTGTTGTAGGGTTAGATTAGGGTTTGTTGGTCGTTTGAGACAGGGTGGGATTAGGCCATCCACAGTCAACGTTTTTATTTGATCTCTCCCATAATACAGTATTTAATTCATTTGTATATCCTTATTTATTCTCTTTGGCATATTTGAAGATTTGAATCCTTAGTCCTGTGTTGATCTCTTGATTACCTAGAACAAGAATTTATAATATAACCTGACATGGTGGTACATGCCTTTATTCATAGCACTTACTGTTTGAGTTTGAGGTTAGCCTGGTCTATGTTGTGAGTTTCAGGATAGCCAGGACTATGTAGAAATATCCTATCTCAAAAATTAAAAAAATCAAACAGAAAAGAATTCTAATTGTCCTGTTGCTGTCTTCTTGGGTTTTGGCTTGTTTGTTTGTTTGTTTGTTTGTTTTTTGAGACAGGGTTTCTCTGAGTAGCCCTGGTTGTCCTAGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATTCGCCTGCCTCTGCCTCCCAAGTGCTGGGATCAAAGGTGTGCGCCACCATGCCCAGTGACTATTTTGAATCTATACGCTTGCCTAGGTTCAAAATAAAGTTGGTAAATAGGAGGTTGGCACTTTTTCTTAAATTCCAGCCAGCAAATATTTTAAGCTACGGGTCTTTTGGGATGTTAGGGGCTGTAGGGGGGAGGAGTCTCACTACCTGTCCCTTCCTCCCAAGTGCTTGTCTCTACCATGCCTGTTTGTTTTAACTCTTAGTTCAGTTTTCTAATATGTATATGCAGGTTGTGTTCTGCTATAACCTATACGTATAGAGTAGGAAGCTTGTCAGTTTTAGTTTATCATCTATGCTACAGTGTGGATGAGGAGTTAGAATCAATATTTGGAAGCTATTTATGTAGTTATTTTTATTTTGGCTGTTTGAGACAGTCTCATTGTGTAGCTAGCCTTGGTTGGCCTGGAACCAATCTAACCTAAAACTGATAAAGACCAGCTGCTTCTGCCTTCTGCTTGAACTAAAGGCATGTGCTCTACTCCAGCCTCATGTTTTTCTACAGTGCTAAATAATAAGCCCTATTGATTGGATTTTATTTAGAGTAATTGCTTTTCTCTTTCTATAAATTCCAACTATTTTTTCATGTAATTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGTGCTAAATAATAAGCCCT
55.21
ACTTTGTGTACGGTAGGATGA
56.4
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGTGCTAAATAATAAGCCCT
55.21
ACTTTGTGTACGGTAGGATGAT
56.91
170
PCR template sequence:
TTTTTCTACAGTGCTAAATAATAAGCCCTATTGATTGGATTTTATTTAGAGTAATTGCTTTTCTCTTTCTATAAATTCCAACTATTTTTTCATGTAATTTGTAAAGAAAGGAACAGGAACACTTCTATAGACTTTAACCAGAGAGAGAGATAACTATCATCCTACCGTACACAAAGTATGAATGTTTTGATTCTTAAAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
25
Interacting miRNAs (#binding sites)
mmu-miR-106a-5p(2), mmu-miR-106b-5p(2), mmu-miR-298-5p(2), mmu-miR-709(2), mmu-miR-532-5p(2), mmu-miR-93-5p(1), mmu-miR-429-3p(1), mmu-miR-181a-5p(1), mmu-miR-320-3p(1), mmu-miR-185-5p(1), mmu-miR-339-5p(1), mmu-miR-181b-5p(1), mmu-miR-495-3p(1), mmu-miR-128-3p(1), mmu-miR-467b-5p(1), mmu-miR-370-3p(1), mmu-miR-383-5p(1), mmu-miR-690(1), mmu-miR-29b-2-5p(1), mmu-miR-539-5p(1), mmu-miR-669d-5p(1), mmu-miR-3065-5p(1), mmu-miR-3470b(1), mmu-miR-99a-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTCATGTAATTTGTAAAGAAAGGAA
siRNA sets
TTTCTTTACAAATTACATG, TTCTTTACAAATTACATGA
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
0.924124077
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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