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mmu_ciHars2_1363
Basic information of circular RNA
PanCircBase ID:
mmu_ciHars2_1363
mm39_Chr. Position ID:
chr18|36919224|36920587|+
Gene name:
Hars2
Transcript:
ENSMUST00000134122.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
1363
Exon/intron sizes in nt:
1363
Flanking exon/introns:
chr18:36919224-36923521
Splice length:
1363
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGGAGAGTTGTTGTCTCTGCGCTATGACCTTACTGTATCCTTCAGAATGCAGGAACCCGACCTGTTTCTACCCAAATCCAGAGGACTTTTTCTGGCAGAAGGGAATAGAGGAACTTTGACAGTACCTTTATGTCCACTTTCTCCCAGAAGGCATTTCTTCCTCCAGAGCCTGACATCCAGGCCCTGTTGTTTAACTTCAGTGTTATGAGAATGTCTCCAAGAAGTCCGCAGAAACACAGAGTACTGAGTTTAGCTCCAGAGATCCTAAATTCTATAACTGGTATTTATAAACGTGCCTGTAAAGGAAAATTAGTTAATTACTGTGTGTGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAGTGGCTGACACTTATGTGGACATGTGAAGATAAGGGGAGAACTTTGTGGAGCAGTTCTTTCTTTTTTTTTTTCTTTTTCTTTTTCTTTTTTTTGGTTTTTCCAGACAGGGTTTCTTTGTATAGCCCTGGCTGTCCTGGAACTCACTTTGTAGAACAGGCTGGCCTCGAACTCAGAAATCTGCCTGCCTCTGCCTCCCGAGTGCTGGGATTAAAGGCGTGCGCCACCACGCCTGGCGGAGCGGTTCTTTCTTAACTTCTGTATGGGTCCTAGGGATAGAACTCAGATTATCAGATGTGTACAGCAAACCCCTTTCCCTGCTGTGCCATCTTATAAGTGTTAAGCCAGTGGTTCTCAACCTGTGGGTCATGACCCTCCATGAGTTGCATGTCAGATAGCCTGCATATCAGATATTTACATTATGATTCATAACAGTTGCAGAACAAAACAAAAACAGTTATGGGCGGGGCGGGGGGGGGAGAGGTTTAACACAACAGTAGGAACTATATTAAAGAGTCACAGTGTTAGGAAGGTTGGGAGCCACTGCTCTAAACATTTAAAAACAGAATTCTGGAAAATATTCATGTGGTCTTTGGCCTATGCTTTCAGGAATAGGATTTTAAATTGTAGGCGAATTCAGTTCTGAAGCTTGACTACTTTGTAGGTAGTTGGGTAATGGTCTGAATGGAGGGAAATAGACCAAGCCCAAGGTTTCTTAGGTCATTTCTATCCTTGCCTCTTTTTTCTGATTAACTTTCAGTTTCAGTAAGTGAAACACCTTTGTTAACACCAAGCACTGCTAGGCTTCAGAGACGGTGGGAAACAAGCCTAGGAAGGTCCTTGTTTTCATCCTGTAAAATGAGGATAATTTCCAGGAACTCAGTTCTCCCTCCTGTCTGAATGGTAGGTGTTCGCATGGAACATAGTATCTTTCTTCCTCAACCTCTTTATGTAAGGTCCCTTTTGCTCGATATCTGGCCATGAATAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTAGGTGTTCGCATGGAA
59.31
GTCGGGTTCCTGCATTCTGA
60.04
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGTAGGTGTTCGCATGGA
59.09
GTCGGGTTCCTGCATTCTGA
60.04
151
PCR template sequence:
CTCCTGTCTGAATGGTAGGTGTTCGCATGGAACATAGTATCTTTCTTCCTCAACCTCTTTATGTAAGGTCCCTTTTGCTCGATATCTGGCCATGAATAAAGTGGAGAGTTGTTGTCTCTGCGCTATGACCTTACTGTATCCTTCAGAATGCAGGAACCCGACCTGTTTCTACCCAAATCCAGAGGACTTTTTCTGGCAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-466d-3p(3), mmu-miR-466b-3p(3), mmu-miR-146a-5p(2), mmu-miR-384-3p(2), mmu-miR-146b-5p(2), mmu-miR-141-3p(1), mmu-miR-150-5p(1), mmu-miR-204-5p(1), mmu-miR-298-5p(1), mmu-miR-101b-3p(1), mmu-miR-709(1), mmu-miR-339-5p(1), mmu-miR-10b-5p(1), mmu-miR-192-5p(1), mmu-miR-27a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCCATGAATAAAGTGGAGAGTTGTT
siRNA sets
ACAACTCTCCACTTTATTC, CAACTCTCCACTTTATTCA
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
0.861472419
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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