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mmu_circStag1_883
Basic information of circular RNA
PanCircBase ID:
mmu_circStag1_883
mm39_Chr. Position ID:
chr9|100748152|100773189|+
Gene name:
Stag1
Transcript:
ENSMUST00000129269.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
14,15,16,17,18,19,20,21
Exon/intron offsets:
0,14676,21280,21730,21922,22146,23461,24949
Genomic length:
25037
Exon/intron sizes in nt:
115,118,104,93,90,204,71,88
Flanking exon/introns:
chr9:100737957-100748152|chr9:100773189-100790689
Splice length:
883
Other database IDs:
CIRCpedia: MMU_CIRCpedia_350
circAtlas: hsa-STAG1_0080, CIRCpedia: HSA_CIRCpedia_350107
Human Ortholog IDs:
Mature spliced Sequence:
GCTGTTCAGCAGACATGACCCACAAGCAGAGGAAGCGTTAGCGAAGAGGAGAGGAAGGAACAGTCCAAACGGGAACCTCATTAGGATGCTTGTTCTTTTCTTTCTGGAAAGTGAGTTACATGAACATGCAGCCTACTTGGTGGACAGCTTGTGGGAGAGCTCTCAAGAACTGTTGAAAGACTGGGAATGTATGACAGAGTTACTATTAGAAGAACCTGTTCAAGGAGAAGAAGCAATGTCTGACCGTCAAGAGAGTGCTCTTATAGAGCTAATGGTCTGTACAATTCGTCAGGCAGCTGAGGCACATCCTCCAGTGGGAAGGGGTACTGGCAAGAGAGTGCTAACAGCCAAAGAAAGGAAAACTCAAATTGATGATAGGAACAAATTAACTGAACATTTTATCATTACACTTCCTATGTTACTATCAAAGTATTCTGCAGATGCTGAGAAGGTAGCAAACTTGCTGCAAATTCCACAGTATTTTGATCTAGAAATCTACAGCACAGGTCGGATGGAAAAGCACCTGGATGCTTTATTAAAACAAATTAAGTTTGTTGTAGAGAAACATGTAGAATCAGATGTCCTAGAAGCCTGCAGTAAAACCTACAGCATTTTATGCAGTGAAGAGTATACCATTCAGAATCGAGTTGATATTGCTCGGAGCCAACTGATTGATGAATTTGTAGATCGATTCAATCATTCTGTAGAAGACCTGTTGCAAGAGGGTGAAGAAGCTGACGATGATGATATCTACAATGTTCTTTCCACCTTAAAGCGTTTAACTTCTTTTCACAATGCTCATGATCTCACTAAATGGGATCTATTTGGTAATTGCTACAGACTATTGAAGACTGGAATTGAACATGGAGCTATGCCAGAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTCATGATCTCACTAAATGGGA
59.59
TGAGGTTCCCGTTTGGACTG
59.89
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTCATGATCTCACTAAATGGGA
59.59
GAGGTTCCCGTTTGGACTGT
59.89
167
PCR template sequence:
TTCTTTTCACAATGCTCATGATCTCACTAAATGGGATCTATTTGGTAATTGCTACAGACTATTGAAGACTGGAATTGAACATGGAGCTATGCCAGAACAGGCTGTTCAGCAGACATGACCCACAAGCAGAGGAAGCGTTAGCGAAGAGGAGAGGAAGGAACAGTCCAAACGGGAACCTCATTAGGATGCTTGTTCTTTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-217-5p(1), mmu-miR-22-3p(1), mmu-miR-411-3p(1), mmu-miR-3087-3p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TATGCCAGAACAGGCTGTTCAGCAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSTAG1_883_ORF_1
1.0813
0.082277604
0.972859176
903
ORF sequence:
ATGGAGCTATGCCAGAACAGGCTGTTCAGCAGACATGACCCACAAGCAGAGGAAGCGTTAGCGAAGAGGAGAGGAAGGAACAGTCCAAACGGGAACCTCATTAGGATGCTTGTTCTTTTCTTTCTGGAAAGTGAGTTACATGAACATGCAGCCTACTTGGTGGACAGCTTGTGGGAGAGCTCTCAAGAACTGTTGAAAGACTGGGAATGTATGACAGAGTTACTATTAGAAGAACCTGTTCAAGGAGAAGAAGCAATGTCTGACCGTCAAGAGAGTGCTCTTATAGAGCTAATGGTCTGTACAATTCGTCAGGCAGCTGAGGCACATCCTCCAGTGGGAAGGGGTACTGGCAAGAGAGTGCTAACAGCCAAAGAAAGGAAAACTCAAATTGATGATAGGAACAAATTAACTGAACATTTTATCATTACACTTCCTATGTTACTATCAAAGTATTCTGCAGATGCTGAGAAGGTAGCAAACTTGCTGCAAATTCCACAGTATTTTGATCTAGAAATCTACAGCACAGGTCGGATGGAAAAGCACCTGGATGCTTTATTAAAACAAATTAAGTTTGTTGTAGAGAAACATGTAGAATCAGATGTCCTAGAAGCCTGCAGTAAAACCTACAGCATTTTATGCAGTGAAGAGTATACCATTCAGAATCGAGTTGATATTGCTCGGAGCCAACTGATTGATGAATTTGTAGATCGATTCAATCATTCTGTAGAAGACCTGTTGCAAGAGGGTGAAGAAGCTGACGATGATGATATCTACAATGTTCTTTCCACCTTAAAGCGTTTAACTTCTTTTCACAATGCTCATGATCTCACTAAATGGGATCTATTTGGTAATTGCTACAGACTATTGAAGACTGGAATTGAACATGGAGCTATGCCAGAACAG
Peptide sequence:
MELCQNRLFSRHDPQAEEALAKRRGRNSPNGNLIRMLVLFFLESELHEHAAYLVDSLWESSQELLKDWECMTELLLEEPVQGEEAMSDRQESALIELMVCTIRQAAEAHPPVGRGTGKRVLTAKERKTQIDDRNKLTEHFIITLPMLLSKYSADAEKVANLLQIPQYFDLEIYSTGRMEKHLDALLKQIKFVVEKHVESDVLEACSKTYSILCSEEYTIQNRVDIARSQLIDEFVDRFNHSVEDLLQEGEEADDDDIYNVLSTLKRLTSFHNAHDLTKWDLFGNCYRLLKTGIEHGAMPEQ
IRESfinder result
IRESfinder score
0.623097799
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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