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mmu_circStau2_1614
Basic information of circular RNA
PanCircBase ID:
mmu_circStau2_1614
mm39_Chr. Position ID:
chr1|16415927|16579632|-
Gene name:
Stau2
Transcript:
ENSMUST00000162751.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,20375,24051,28970,44117,46813,48347,94619,117331,140316,163638
Genomic length:
163705
Exon/intron sizes in nt:
308,61,132,138,213,108,160,136,160,131,67
Flanking exon/introns:
chr1:16301315-16415927|chr1:16579632-16589396
Splice length:
1614
Other database IDs:
CIRCpedia: MMU_CIRCpedia_11375, circAtlas: mmu-Stau2_0002
circAtlas: hsa-STAU2_0006, CIRCpedia: HSA_CIRCpedia_141563
Human Ortholog IDs:
Mature spliced Sequence:
TTTTGTGGAGCTGTGAGGGATACGGAAGTTTGATCAATATTGTCTTAACATGCTTCAGATAAATCAGCTTCTCTCCACGATAAAATGGCAAACCCCAAAGAGAAAACTCCAGTGTGTCTGGTAAATGAGTTAGCCCGTTTCCATAGCATCCAACCCCAGTATAAGCTTCTGAATGAAAGCGGGCCTGCTCATTCGAAGATGTTTTCGGTGCAGCTGAGTCTTGGCGAGCAGACATGGGAATCCGAAGGGAGCAGTATAAAGAAGGCCCAACAAGCTGTTGCTAACAAAGCTTTGACTGAATCTACGCTTCCCAAACCAGTTCAGAAACCACCTAAAAGTAATGTCAATAATAACCCAGGTAGTATAACTCCAACTGTGGAACTGAATGGGCTCGCTATGAAAAGGGGAGAGCCTGCCATCTACAGGCCACTAGATCCAAAGCCATTCCCAAATTATAGAGCTAACTACAACTTCCGGGGCATGTACAATCAGAGGTATCATTGCCCAATGCCCAAGATCTTTTATGTTCAGTTAACTGTAGGAAATAATGAATTCTTTGGTGAAGGGAAGACTCGACAAGCTGCCAGACACAATGCTGCGATGAAAGCGCTTCAAGCCCTACAGAATGAGCCAATTCCAGAAAAGTCTCCCCAGAATGGTGAATCAGGAAAAGAAATGGATGACGATAAAGATGCAAATAAATCTGAAATAAGCTTAGTGTTTGAGATTGCGCTGAAGAGAAATATGCCTGTCAGTTTTGAGGTTATTAAAGAAAGTGGACCACCACATATGAAGAGTTTTGTAACTCGGGTGTCAGTGGGAGAATTTTCTGCAGAAGGAGAGGGAAATAGCAAAAAACTCTCCAAGAAGCGTGCCGCAACCACTGTCTTACAGGAGCTTAAAAAACTCCCACCTCTTCCTGTGGTAGAGAAGCCAAAACTATTTTTTAAAAAACGCCCTAAAACAATAGTAAAGGCTGGACCCGACTATGGTCAAGGAATGAACCCCATTAGCCGCCTGGCTCAGATCCAGCAAGCCAGAAAGGAAAAGGAGCCTGATTACATCCTACTCTCAGAACGAGGAATGCCTCGCCGTCGAGAGTTCGTAATGCAGGTCAAGGTAGGCAATGAAGTTGCGACTGGAACAGGACCCAATAAAAAGATAGCCAAAAAAAATGCTGCTGAAGCAATGCTGTTACAGCTTGGCTATAAAGCGTCCACCAGTCTTCAGGATCCGCTCGACAAGACAGGTGAAAACAAAGGATGGAGTGGTCCAAAGCCTGGGTTTCCTGAACCAACAAATAACACTCCAAAAGGAATTCTTCATCTTTCTCCTGATGTTTATCAAGAGATGGAAGCTAGCCGCCACAGAGTGACCTCTGGCACAACTCTAAGCTACTTATCTCCCAAAGATATGAACCAACCTTCAAGCTCTTTCTTCAGTGTGTCTCCCTCATCAACTAGTTCAGCCACAGTTGCCAGGGAACTCCTTATGAATGGAACATCTCCTACTGCTGAAGCCATAGGTTTAAAAGGAAGTTCTCCTACTTCCCCTTGTTCTTCAGTACAGCCTTCAAAACAACTGGAATATTTAGCAAGGATTCAAGGCTTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCCTTGTTCTTCAGTACAGC
59.96
TGGGGTTTGCCATTTTATCGTG
59.77
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCTTGTTCTTCAGTACAGCCT
59.96
TGGGGTTTGCCATTTTATCGTG
59.77
161
PCR template sequence:
TGAAGCCATAGGTTTAAAAGGAAGTTCTCCTACTTCCCCTTGTTCTTCAGTACAGCCTTCAAAACAACTGGAATATTTAGCAAGGATTCAAGGCTTTCAGTTTTGTGGAGCTGTGAGGGATACGGAAGTTTGATCAATATTGTCTTAACATGCTTCAGATAAATCAGCTTCTCTCCACGATAAAATGGCAAACCCCAAAG
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-103-3p(2), mmu-miR-107-3p(2), mmu-miR-135a-5p(1), mmu-miR-204-5p(1), mmu-miR-322-5p(1), mmu-miR-136-5p(1), mmu-miR-194-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-673-5p(1), mmu-miR-484(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
TCAAGGCTTTCAGTTTTGTGGAGCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSTAU2_1614_ORF_1
0.9709
0.082303482
0.999697344
1563
ORF sequence:
ATGGCAAACCCCAAAGAGAAAACTCCAGTGTGTCTGGTAAATGAGTTAGCCCGTTTCCATAGCATCCAACCCCAGTATAAGCTTCTGAATGAAAGCGGGCCTGCTCATTCGAAGATGTTTTCGGTGCAGCTGAGTCTTGGCGAGCAGACATGGGAATCCGAAGGGAGCAGTATAAAGAAGGCCCAACAAGCTGTTGCTAACAAAGCTTTGACTGAATCTACGCTTCCCAAACCAGTTCAGAAACCACCTAAAAGTAATGTCAATAATAACCCAGGTAGTATAACTCCAACTGTGGAACTGAATGGGCTCGCTATGAAAAGGGGAGAGCCTGCCATCTACAGGCCACTAGATCCAAAGCCATTCCCAAATTATAGAGCTAACTACAACTTCCGGGGCATGTACAATCAGAGGTATCATTGCCCAATGCCCAAGATCTTTTATGTTCAGTTAACTGTAGGAAATAATGAATTCTTTGGTGAAGGGAAGACTCGACAAGCTGCCAGACACAATGCTGCGATGAAAGCGCTTCAAGCCCTACAGAATGAGCCAATTCCAGAAAAGTCTCCCCAGAATGGTGAATCAGGAAAAGAAATGGATGACGATAAAGATGCAAATAAATCTGAAATAAGCTTAGTGTTTGAGATTGCGCTGAAGAGAAATATGCCTGTCAGTTTTGAGGTTATTAAAGAAAGTGGACCACCACATATGAAGAGTTTTGTAACTCGGGTGTCAGTGGGAGAATTTTCTGCAGAAGGAGAGGGAAATAGCAAAAAACTCTCCAAGAAGCGTGCCGCAACCACTGTCTTACAGGAGCTTAAAAAACTCCCACCTCTTCCTGTGGTAGAGAAGCCAAAACTATTTTTTAAAAAACGCCCTAAAACAATAGTAAAGGCTGGACCCGACTATGGTCAAGGAATGAACCCCATTAGCCGCCTGGCTCAGATCCAGCAAGCCAGAAAGGAAAAGGAGCCTGATTACATCCTACTCTCAGAACGAGGAATGCCTCGCCGTCGAGAGTTCGTAATGCAGGTCAAGGTAGGCAATGAAGTTGCGACTGGAACAGGACCCAATAAAAAGATAGCCAAAAAAAATGCTGCTGAAGCAATGCTGTTACAGCTTGGCTATAAAGCGTCCACCAGTCTTCAGGATCCGCTCGACAAGACAGGTGAAAACAAAGGATGGAGTGGTCCAAAGCCTGGGTTTCCTGAACCAACAAATAACACTCCAAAAGGAATTCTTCATCTTTCTCCTGATGTTTATCAAGAGATGGAAGCTAGCCGCCACAGAGTGACCTCTGGCACAACTCTAAGCTACTTATCTCCCAAAGATATGAACCAACCTTCAAGCTCTTTCTTCAGTGTGTCTCCCTCATCAACTAGTTCAGCCACAGTTGCCAGGGAACTCCTTATGAATGGAACATCTCCTACTGCTGAAGCCATAGGTTTAAAAGGAAGTTCTCCTACTTCCCCTTGTTCTTCAGTACAGCCTTCAAAACAACTGGAATATTTAGCAAGGATTCAAGGCTTTCAGTTTTGTGGAGCTGTGAGGGATACGGAAGTTTGA
Peptide sequence:
MANPKEKTPVCLVNELARFHSIQPQYKLLNESGPAHSKMFSVQLSLGEQTWESEGSSIKKAQQAVANKALTESTLPKPVQKPPKSNVNNNPGSITPTVELNGLAMKRGEPAIYRPLDPKPFPNYRANYNFRGMYNQRYHCPMPKIFYVQLTVGNNEFFGEGKTRQAARHNAAMKALQALQNEPIPEKSPQNGESGKEMDDDKDANKSEISLVFEIALKRNMPVSFEVIKESGPPHMKSFVTRVSVGEFSAEGEGNSKKLSKKRAATTVLQELKKLPPLPVVEKPKLFFKKRPKTIVKAGPDYGQGMNPISRLAQIQQARKEKEPDYILLSERGMPRRREFVMQVKVGNEVATGTGPNKKIAKKNAAEAMLLQLGYKASTSLQDPLDKTGENKGWSGPKPGFPEPTNNTPKGILHLSPDVYQEMEASRHRVTSGTTLSYLSPKDMNQPSSSFFSVSPSSTSSATVARELLMNGTSPTAEAIGLKGSSPTSPCSSVQPSKQLEYLARIQGFQFCGAVRDTEV
IRESfinder result
IRESfinder score
0.557139788
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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