top of page
mmu_circSrp72_471
Basic information of circular RNA
PanCircBase ID:
mmu_circSrp72_471
mm39_Chr. Position ID:
chr5|77128134|77132238|+
Gene name:
Srp72
Transcript:
ENSMUST00000101087.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
4,5,6,7,8
Exon/intron offsets:
0,227,1947,3830,4046
Genomic length:
4104
Exon/intron sizes in nt:
144,112,32,125,58
Flanking exon/introns:
chr5:77126553-77128134|chr5:77132238-77135713
Splice length:
471
Other database IDs:
circAtlas: mmu-Srp72_0022
circAtlas: hsa-SRP72_0025, CIRCpedia: HSA_CIRCpedia_363855
Human Ortholog IDs:
Mature spliced Sequence:
CTGTACCGCCTGGAACGCTACGATGAGTGCTTGGCTGTGTACAGAGATCTTGTCCGGAACTCCCAGGACGACTATGATGAGGAGAGGAAAACAAACCTGTCAGCGGTCGTTGCCGCTCAGAGCAACTGGGAAAAAGTGGTTCCTGAGAACTTGGGTCTCCAAGAAGGCACACACGAGCTCTGTTACAACGCTGCATGTGCACTGATAGGGCAAGGCCAGCTGACCCAGGCCATGAAAATCCTGCAAAAAGCTGAAGATCTTTGTCGCCGTTCATTTTCAGAAGATTCAGATGGGGCTGAGGAGGACCCCCAGGCGGAACTGGCCATCATCCATGGTCAGATGGCGTACATCATGCAGCTGCAGGGTCGCACAGAGGAGGCGCTGCAGCTCTACAATCAGATCATCAAGCTGAAGCCAACAGATGTGGCACTTCTCGCTGTAATCGCAAATAACATCATTACCATTAATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCTGCAGCTCTACAATCAG
59.07
TAGTCGTCCTGGGAGTTCCG
60.68
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCGCTGCAGCTCTACAATCA
61.09
TAGTCGTCCTGGGAGTTCCG
60.68
167
PCR template sequence:
AGAGGAGGCGCTGCAGCTCTACAATCAGATCATCAAGCTGAAGCCAACAGATGTGGCACTTCTCGCTGTAATCGCAAATAACATCATTACCATTAATAAGCTGTACCGCCTGGAACGCTACGATGAGTGCTTGGCTGTGTACAGAGATCTTGTCCGGAACTCCCAGGACGACTATGATGAGGAGAGGAAAACAAACCTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-31-5p(1), mmu-miR-148a-3p(1), mmu-miR-676-3p(1), mmu-miR-194-5p(1), mmu-miR-107-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TACCATTAATAAGCTGTACCGCCTGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSRP72_471_ORF_1
1.2592
0.468131123
0.984036054
711
ORF sequence:
ATGAAAATCCTGCAAAAAGCTGAAGATCTTTGTCGCCGTTCATTTTCAGAAGATTCAGATGGGGCTGAGGAGGACCCCCAGGCGGAACTGGCCATCATCCATGGTCAGATGGCGTACATCATGCAGCTGCAGGGTCGCACAGAGGAGGCGCTGCAGCTCTACAATCAGATCATCAAGCTGAAGCCAACAGATGTGGCACTTCTCGCTGTAATCGCAAATAACATCATTACCATTAATAAGCTGTACCGCCTGGAACGCTACGATGAGTGCTTGGCTGTGTACAGAGATCTTGTCCGGAACTCCCAGGACGACTATGATGAGGAGAGGAAAACAAACCTGTCAGCGGTCGTTGCCGCTCAGAGCAACTGGGAAAAAGTGGTTCCTGAGAACTTGGGTCTCCAAGAAGGCACACACGAGCTCTGTTACAACGCTGCATGTGCACTGATAGGGCAAGGCCAGCTGACCCAGGCCATGAAAATCCTGCAAAAAGCTGAAGATCTTTGTCGCCGTTCATTTTCAGAAGATTCAGATGGGGCTGAGGAGGACCCCCAGGCGGAACTGGCCATCATCCATGGTCAGATGGCGTACATCATGCAGCTGCAGGGTCGCACAGAGGAGGCGCTGCAGCTCTACAATCAGATCATCAAGCTGAAGCCAACAGATGTGGCACTTCTCGCTGTAATCGCAAATAACATCATTACCATTAATAAG
Peptide sequence:
MKILQKAEDLCRRSFSEDSDGAEEDPQAELAIIHGQMAYIMQLQGRTEEALQLYNQIIKLKPTDVALLAVIANNIITINKLYRLERYDECLAVYRDLVRNSQDDYDEERKTNLSAVVAAQSNWEKVVPENLGLQEGTHELCYNAACALIGQGQLTQAMKILQKAEDLCRRSFSEDSDGAEEDPQAELAIIHGQMAYIMQLQGRTEEALQLYNQIIKLKPTDVALLAVIANNIITINK
IRESfinder result
IRESfinder score
0.270485951
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page