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mmu_circOrc3_395
Basic information of circular RNA
PanCircBase ID:
mmu_circOrc3_395
mm39_Chr. Position ID:
chr4|34584803|34587082|-
Gene name:
Orc3
Transcript:
ENSMUST00000108142.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
13,12,11,10
Exon/intron offsets:
0,769,1640,2145
Genomic length:
2279
Exon/intron sizes in nt:
8,01,17,64,134
Flanking exon/introns:
chr4:34579876-34584803|chr4:34587082-34593060
Splice length:
395
Other database IDs:
CIRCpedia: MMU_CIRCpedia_17383, circAtlas: mmu-Orc3_0007
circBase: hsa_circ_0132593, circAtlas: hsa-ORC3_0005, CIRCpedia: HSA_CIRCpedia_55754
Human Ortholog IDs:
Mature spliced Sequence:
CTTTCTCTACTAGAACATTTTTATTCCCAGCCCCTAAGTGTTCTGTGCTGCGATCTCTCAGAAGCCAAGAAAAGAGTAAATGTTTTCTCAGTTAGTCAATGTGAAAACATCCGCCGCCTTCCTTCATTTAGGAGGTACGTGGAAAACCAGCCTTTGGGAAAGCAAGTGGCACTGCTGACAAATGAGACCTTCTTAAAGGAGAAAACTCAATCATTGCTGGAAGACCTGCATGTTTACCATATCAATTACTTCCTTGTCTTGAGATGTCTTCATAATTTTACCTCTTCTCTTCCCAAGTACCCACTGGGTCGACAGATTAGGGAGCTGTATTGCACATGTTTAGAAAAGAAGATATGGGATTCGGAGGAGTACAAGTCAGCCTTGCAGCTGCTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTCGACAGATTAGGGAGC
59.61
GCTTCTGAGAGATCGCAGCA
60.18
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTCGACAGATTAGGGAGC
59.61
AGATCGCAGCACAGAACACT
59.68
146
PCR template sequence:
AGTACCCACTGGGTCGACAGATTAGGGAGCTGTATTGCACATGTTTAGAAAAGAAGATATGGGATTCGGAGGAGTACAAGTCAGCCTTGCAGCTGCTGAGCTTTCTCTACTAGAACATTTTTATTCCCAGCCCCTAAGTGTTCTGTGCTGCGATCTCTCAGAAGCCAAGAAAAGAGTAAATGTTTTCTCAGTTAGTCAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-30d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCAGCTGCTGAGCTTTCTCTACTAG
siRNA sets
CTAGTAGAGAAAGCTCAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCORC3_395_ORF_1
0.7243
0.035081938
0.377016917
453
ORF sequence:
ATGTTTAGAAAAGAAGATATGGGATTCGGAGGAGTACAAGTCAGCCTTGCAGCTGCTGAGCTTTCTCTACTAGAACATTTTTATTCCCAGCCCCTAAGTGTTCTGTGCTGCGATCTCTCAGAAGCCAAGAAAAGAGTAAATGTTTTCTCAGTTAGTCAATGTGAAAACATCCGCCGCCTTCCTTCATTTAGGAGGTACGTGGAAAACCAGCCTTTGGGAAAGCAAGTGGCACTGCTGACAAATGAGACCTTCTTAAAGGAGAAAACTCAATCATTGCTGGAAGACCTGCATGTTTACCATATCAATTACTTCCTTGTCTTGAGATGTCTTCATAATTTTACCTCTTCTCTTCCCAAGTACCCACTGGGTCGACAGATTAGGGAGCTGTATTGCACATGTTTAGAAAAGAAGATATGGGATTCGGAGGAGTACAAGTCAGCCTTGCAGCTGCTG
Peptide sequence:
MFRKEDMGFGGVQVSLAAAELSLLEHFYSQPLSVLCCDLSEAKKRVNVFSVSQCENIRRLPSFRRYVENQPLGKQVALLTNETFLKEKTQSLLEDLHVYHINYFLVLRCLHNFTSSLPKYPLGRQIRELYCTCLEKKIWDSEEYKSALQLL
IRESfinder result
IRESfinder score
0.793782887
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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