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mmu_circDscam_591
Basic information of circular RNA
PanCircBase ID:
mmu_circDscam_591
mm39_Chr. Position ID:
chr16|96510310|96519379|-
Gene name:
Dscam
Transcript:
ENSMUST00000056102.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
15,14,13,12
Exon/intron offsets:
0,6228,6947,8872
Genomic length:
9069
Exon/intron sizes in nt:
16,81,29,97,197
Flanking exon/introns:
chr16:96498728-96510310|chr16:96519379-96573604
Splice length:
591
Other database IDs:
circBase: mmu_circ_0006518, CIRCpedia: MMU_CIRCpedia_35446, circAtlas: mmu-Dscam_0005
circBase: hsa_circ_0116079, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_122185
Human Ortholog IDs:
Mature spliced Sequence:
TTCCTGCCATGATAACCTCTTACCCCAACACCACCCTGGCCACTCAGGGTCAAAGGAAGGAAATGAGCTGCACAGCCCATGGGGAGAAGCCCATCATTGTCCGCTGGGAGAAAGAGGACAGGATCATTAACCCTGAAATGGCCCGCTACCTGGTATCCACCAAGGAGGTGGGAGAGGAAGTGATATCTACGCTGCAGATTTTGCCAACAGTGAGAGAAGATTCCGGTTTCTTCTCCTGCCATGCTATCAATTCATACGGGGAGGACCGTGGAATAATTCAACTCACAGTGCAAGAACCCCCAGATCCTCCCGAGATTGAGATCAAAGATGTCAAAGCTCGCACCATCACGCTCAGGTGGACCATGGGGTTTGATGGCAACAGCCCCATCACAGGCTATGACATTGAATGCAAAAATAAATCAGACTCCTGGGATTCTGCTCAAAGAACCAAAGATGTTTCCCCTCAGCTGAACTCGGCCACCATCATTGATATCCACCCTTCCTCCACCTACAGCATCCGCATGTACGCCAAGAACCGGATTGGCAAGAGTGAGCCCAGCAACGAGATCACCATCACGGCGGATGAGGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCACCCTTCCTCCACCTAC
60.25
TTCCTTTGACCCTGAGTGGC
59.89
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACCTACAGCATCCGCATGT
60.46
TTCCTTTGACCCTGAGTGGC
59.89
144
PCR template sequence:
ATCCACCCTTCCTCCACCTACAGCATCCGCATGTACGCCAAGAACCGGATTGGCAAGAGTGAGCCCAGCAACGAGATCACCATCACGGCGGATGAGGCAGTTCCTGCCATGATAACCTCTTACCCCAACACCACCCTGGCCACTCAGGGTCAAAGGAAGGAAATGAGCTGCACAGCCCATGGGGAGAAGCCCATCATTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-33-5p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCGGATGAGGCAGTTCCTGCCATGAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDSCAM_591_ORF_1
1.1768
0.441538705
0.999244747
1173
ORF sequence:
ATGATAACCTCTTACCCCAACACCACCCTGGCCACTCAGGGTCAAAGGAAGGAAATGAGCTGCACAGCCCATGGGGAGAAGCCCATCATTGTCCGCTGGGAGAAAGAGGACAGGATCATTAACCCTGAAATGGCCCGCTACCTGGTATCCACCAAGGAGGTGGGAGAGGAAGTGATATCTACGCTGCAGATTTTGCCAACAGTGAGAGAAGATTCCGGTTTCTTCTCCTGCCATGCTATCAATTCATACGGGGAGGACCGTGGAATAATTCAACTCACAGTGCAAGAACCCCCAGATCCTCCCGAGATTGAGATCAAAGATGTCAAAGCTCGCACCATCACGCTCAGGTGGACCATGGGGTTTGATGGCAACAGCCCCATCACAGGCTATGACATTGAATGCAAAAATAAATCAGACTCCTGGGATTCTGCTCAAAGAACCAAAGATGTTTCCCCTCAGCTGAACTCGGCCACCATCATTGATATCCACCCTTCCTCCACCTACAGCATCCGCATGTACGCCAAGAACCGGATTGGCAAGAGTGAGCCCAGCAACGAGATCACCATCACGGCGGATGAGGCAGTTCCTGCCATGATAACCTCTTACCCCAACACCACCCTGGCCACTCAGGGTCAAAGGAAGGAAATGAGCTGCACAGCCCATGGGGAGAAGCCCATCATTGTCCGCTGGGAGAAAGAGGACAGGATCATTAACCCTGAAATGGCCCGCTACCTGGTATCCACCAAGGAGGTGGGAGAGGAAGTGATATCTACGCTGCAGATTTTGCCAACAGTGAGAGAAGATTCCGGTTTCTTCTCCTGCCATGCTATCAATTCATACGGGGAGGACCGTGGAATAATTCAACTCACAGTGCAAGAACCCCCAGATCCTCCCGAGATTGAGATCAAAGATGTCAAAGCTCGCACCATCACGCTCAGGTGGACCATGGGGTTTGATGGCAACAGCCCCATCACAGGCTATGACATTGAATGCAAAAATAAATCAGACTCCTGGGATTCTGCTCAAAGAACCAAAGATGTTTCCCCTCAGCTGAACTCGGCCACCATCATTGATATCCACCCTTCCTCCACCTACAGCATCCGCATGTACGCCAAGAACCGGATTGGCAAGAGTGAGCCCAGCAACGAGATCACCATCACGGCGGATGAGGCA
Peptide sequence:
MITSYPNTTLATQGQRKEMSCTAHGEKPIIVRWEKEDRIINPEMARYLVSTKEVGEEVISTLQILPTVREDSGFFSCHAINSYGEDRGIIQLTVQEPPDPPEIEIKDVKARTITLRWTMGFDGNSPITGYDIECKNKSDSWDSAQRTKDVSPQLNSATIIDIHPSSTYSIRMYAKNRIGKSEPSNEITITADEAVPAMITSYPNTTLATQGQRKEMSCTAHGEKPIIVRWEKEDRIINPEMARYLVSTKEVGEEVISTLQILPTVREDSGFFSCHAINSYGEDRGIIQLTVQEPPDPPEIEIKDVKARTITLRWTMGFDGNSPITGYDIECKNKSDSWDSAQRTKDVSPQLNSATIIDIHPSSTYSIRMYAKNRIGKSEPSNEITITADEA
IRESfinder result
IRESfinder score
0.379264794
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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