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mmu_circRc3h2_1123
Basic information of circular RNA
PanCircBase ID:
mmu_circRc3h2_1123
mm39_Chr. Position ID:
chr2|37271881|37279902|-
Gene name:
Rc3h2
Transcript:
ENSMUST00000112934.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
14,13,12,11
Exon/intron offsets:
0,913,3376,7715
Genomic length:
8021
Exon/intron sizes in nt:
1,68,43,42,15,306
Flanking exon/introns:
chr2:37269016-37271881|chr2:37279902-37288255
Splice length:
1123
Other database IDs:
CIRCpedia: MMU_CIRCpedia_18533, circAtlas: mmu-Rc3h2_0014
Human Ortholog IDs:
Mature spliced Sequence:
GTACCGATTAAGGAACAAAAAGATGAGCGCGACTGTAAGAACATTTCCTCTTCTGAATAAAGTTGGTGTAAACAGCACTGTCACAACCACAGCCGGAAATGTCATTTCTGTCATAGGAAGTACTGAAACAACTGGGAAAATTGTTGCAAGTACAAATGGAATTTCAAATACAGAAAGCAGTGTTTCTCAGCTAATCCCACGAGGCACTGACAGTGCAGTAAGGACTTTGGAGACTGTGAAGAAAGTCGGGAAGGTTGGCACTAATGCTCAGAATGCTGGGCCCTCTGCAGAGTCCGTGTCTGAAAATAAAATTGGTTCTCCACCCAAGACTCCTGTAAGTAATGCAGCAGCTACCTCCGCTGGGCCCTCTAATTTTGGAACAGAGCTGAATTCCCTGCCTCCCAAATCCAGCCCATTTCTAACTAGAGTTCCAGTATATCCTCAGCATTCTGAAAGCATTCAGTATTTTCAAGATCCAAGGACTCAGATACCTTTTGAAGTCCCACAATACCCACAAACAGGATACTACCCACCACCTCCAACGGTACCAGCTGGTGTGACTCCCTGTGTTCCTCGCTTTGTGAGGTCCAGTAATGTTCCAGAGTCCTCCCTCCCACCTGCTTCCATGCCATATGCTGATCATTACAGTACATTCTCCCCTCGAGATCGAATGAATTCTTCTCCTTACCAACCTCCTCCTCCGCAGCAGTATGGACCAGTTCCTCCAGTACCCTCTGGAATGTATGCTCCGGTGTATGACAGCAGGCGCATCTGGCGCCCAGCTATGTACCAACGAGATGACATTATTAGAAGCAATTCTTTACCTCCAATGGATGTGATGCACTCATCTGTCTATCAGACATCTTTACGGGAAAGATACAACTCATTAGATGGATATTATTCAGTGGCTTGTCAGCCACCGAATGACCCAAGGACAACTGTGCCTTTACCAAGGGAACCTTGTGGTCATTTGAAGACCAGTTGTGAGGAACAGTTAAGAAGAAAGCCAGATCAGTGGACACAGTATCATACCCAGAAAACACCTGTCTCTTCAACTCTTCCTGTGGCCACACAGTCACCAACACCACCTTCTCCTCTATTCAGTGTAGACTTCCGATCGGAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACAGTCACCAACACCACCT
60.11
ATTTCCGGCTGTGGTTGTGA
60.18
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAACTCTTCCTGTGGCCAC
59.89
ATTTCCGGCTGTGGTTGTGA
60.18
172
PCR template sequence:
GTATCATACCCAGAAAACACCTGTCTCTTCAACTCTTCCTGTGGCCACACAGTCACCAACACCACCTTCTCCTCTATTCAGTGTAGACTTCCGATCGGATGTACCGATTAAGGAACAAAAAGATGAGCGCGACTGTAAGAACATTTCCTCTTCTGAATAAAGTTGGTGTAAACAGCACTGTCACAACCACAGCCGGAAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-let-7a-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-let-7d-5p(1), mmu-miR-501-3p(1), mmu-miR-98-5p(1), mmu-miR-705(1), mmu-miR-350-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTCCGATCGGATGTACCGATTAAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRC3H2_1123_ORF_1
0.9554
0.031869316
0.993237407
1161
ORF sequence:
ATGAGCGCGACTGTAAGAACATTTCCTCTTCTGAATAAAGTTGGTGTAAACAGCACTGTCACAACCACAGCCGGAAATGTCATTTCTGTCATAGGAAGTACTGAAACAACTGGGAAAATTGTTGCAAGTACAAATGGAATTTCAAATACAGAAAGCAGTGTTTCTCAGCTAATCCCACGAGGCACTGACAGTGCAGTAAGGACTTTGGAGACTGTGAAGAAAGTCGGGAAGGTTGGCACTAATGCTCAGAATGCTGGGCCCTCTGCAGAGTCCGTGTCTGAAAATAAAATTGGTTCTCCACCCAAGACTCCTGTAAGTAATGCAGCAGCTACCTCCGCTGGGCCCTCTAATTTTGGAACAGAGCTGAATTCCCTGCCTCCCAAATCCAGCCCATTTCTAACTAGAGTTCCAGTATATCCTCAGCATTCTGAAAGCATTCAGTATTTTCAAGATCCAAGGACTCAGATACCTTTTGAAGTCCCACAATACCCACAAACAGGATACTACCCACCACCTCCAACGGTACCAGCTGGTGTGACTCCCTGTGTTCCTCGCTTTGTGAGGTCCAGTAATGTTCCAGAGTCCTCCCTCCCACCTGCTTCCATGCCATATGCTGATCATTACAGTACATTCTCCCCTCGAGATCGAATGAATTCTTCTCCTTACCAACCTCCTCCTCCGCAGCAGTATGGACCAGTTCCTCCAGTACCCTCTGGAATGTATGCTCCGGTGTATGACAGCAGGCGCATCTGGCGCCCAGCTATGTACCAACGAGATGACATTATTAGAAGCAATTCTTTACCTCCAATGGATGTGATGCACTCATCTGTCTATCAGACATCTTTACGGGAAAGATACAACTCATTAGATGGATATTATTCAGTGGCTTGTCAGCCACCGAATGACCCAAGGACAACTGTGCCTTTACCAAGGGAACCTTGTGGTCATTTGAAGACCAGTTGTGAGGAACAGTTAAGAAGAAAGCCAGATCAGTGGACACAGTATCATACCCAGAAAACACCTGTCTCTTCAACTCTTCCTGTGGCCACACAGTCACCAACACCACCTTCTCCTCTATTCAGTGTAGACTTCCGATCGGATGTACCGATTAAGGAACAAAAAGATGAGCGCGACTGTAAGAACATTTCCTCTTCTGAATAA
Peptide sequence:
MSATVRTFPLLNKVGVNSTVTTTAGNVISVIGSTETTGKIVASTNGISNTESSVSQLIPRGTDSAVRTLETVKKVGKVGTNAQNAGPSAESVSENKIGSPPKTPVSNAAATSAGPSNFGTELNSLPPKSSPFLTRVPVYPQHSESIQYFQDPRTQIPFEVPQYPQTGYYPPPPTVPAGVTPCVPRFVRSSNVPESSLPPASMPYADHYSTFSPRDRMNSSPYQPPPPQQYGPVPPVPSGMYAPVYDSRRIWRPAMYQRDDIIRSNSLPPMDVMHSSVYQTSLRERYNSLDGYYSVACQPPNDPRTTVPLPREPCGHLKTSCEEQLRRKPDQWTQYHTQKTPVSSTLPVATQSPTPPSPLFSVDFRSDVPIKEQKDERDCKNISSSE
IRESfinder result
IRESfinder score
0.6676177
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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