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mmu_circEml6_640
Basic information of circular RNA
PanCircBase ID:
mmu_circEml6_640
mm39_Chr. Position ID:
chr11|29699258|29702550|-
Gene name:
Eml6
Transcript:
ENSMUST00000058902.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
38,37,36,35
Exon/intron offsets:
0,546,1930,3177
Genomic length:
3292
Exon/intron sizes in nt:
1,63,17,31,89,115
Flanking exon/introns:
chr11:29697533-29699258|chr11:29702550-29703063
Splice length:
640
Other database IDs:
CIRCpedia: MMU_CIRCpedia_220642, circAtlas: mmu-Eml6_0068
Human Ortholog IDs:
Mature spliced Sequence:
GACTAAGGAAGGAGGAGCTGTAAAGTTGTGGGACCAGGAGATGAAGCGCTGTCGGGCCTTCCAGCTGGAAACAGGGCAGCTGGTGGAATGTGTGCGCTCGGTGTGCCGTGGCAAGGGAAAAATCTTAGTAGGAACCAAAGATGGTGAAATAATTGAAGTTGGGGAAAAAAGCGCTGCTTCAAACATCCTGATTGATGGACACATGGAGGGGGAGATCTGGGGCCTAGCCACACACCCCTCCAAGGACATGTTCATCTCAGCCAGCAATGATGGCACAGCAAGGATCTGGGACCTGGCTGACAAGAAACTGTTAAACAAGGTGAACCTGGGCCATGCGGCCAGGTGTGCAGCCTATAGCCCTGATGGGGAGATGGTGGCCATTGGCATGAAGAATGGAGAGTTTGTCATCTTGCTGGTGAACACCCTGAAAGTTTGGGGGAAAAAACGAGACCGGAAATCTGCCATCCAAGATATCAGAATCAGCCCAGACAACAGATTCTTAGCTGTGGGGTCTTCTGAGCAGACAGTTGACTTCTATGACCTTACTCAGGGCACAAGTCTGAACCGGATCGGCTACTGCAAAGACATCCCAAGCTTTGTCATTCAGATGGACTTTTCTGCAGACAGCAAATACATTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGGGCACAAGTCTGAACC
59.89
GCTTCATCTCCTGGTCCCAC
60.11
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGGGCACAAGTCTGAACC
59.89
CAGCGCTTCATCTCCTGGTC
60.81
145
PCR template sequence:
CCTTACTCAGGGCACAAGTCTGAACCGGATCGGCTACTGCAAAGACATCCCAAGCTTTGTCATTCAGATGGACTTTTCTGCAGACAGCAAATACATTCAGGACTAAGGAAGGAGGAGCTGTAAAGTTGTGGGACCAGGAGATGAAGCGCTGTCGGGCCTTCCAGCTGGAAACAGGGCAGCTGGTGGAATGTGTGCGCTCG
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-9-5p(1), mmu-miR-143-3p(1), mmu-miR-136-5p(1), mmu-miR-351-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAATACATTCAGGACTAAGGAAGGA
siRNA sets
TTAGTCCTGAATGTATTTG, CTTCCTTAGTCCTGAATGT, TTCCTTAGTCCTGAATGTA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEML6_640_ORF_1
1.08
0.342797122
0.924841577
606
ORF sequence:
ATGAAGCGCTGTCGGGCCTTCCAGCTGGAAACAGGGCAGCTGGTGGAATGTGTGCGCTCGGTGTGCCGTGGCAAGGGAAAAATCTTAGTAGGAACCAAAGATGGTGAAATAATTGAAGTTGGGGAAAAAAGCGCTGCTTCAAACATCCTGATTGATGGACACATGGAGGGGGAGATCTGGGGCCTAGCCACACACCCCTCCAAGGACATGTTCATCTCAGCCAGCAATGATGGCACAGCAAGGATCTGGGACCTGGCTGACAAGAAACTGTTAAACAAGGTGAACCTGGGCCATGCGGCCAGGTGTGCAGCCTATAGCCCTGATGGGGAGATGGTGGCCATTGGCATGAAGAATGGAGAGTTTGTCATCTTGCTGGTGAACACCCTGAAAGTTTGGGGGAAAAAACGAGACCGGAAATCTGCCATCCAAGATATCAGAATCAGCCCAGACAACAGATTCTTAGCTGTGGGGTCTTCTGAGCAGACAGTTGACTTCTATGACCTTACTCAGGGCACAAGTCTGAACCGGATCGGCTACTGCAAAGACATCCCAAGCTTTGTCATTCAGATGGACTTTTCTGCAGACAGCAAATACATTCAGGACTAA
Peptide sequence:
MKRCRAFQLETGQLVECVRSVCRGKGKILVGTKDGEIIEVGEKSAASNILIDGHMEGEIWGLATHPSKDMFISASNDGTARIWDLADKKLLNKVNLGHAARCAAYSPDGEMVAIGMKNGEFVILLVNTLKVWGKKRDRKSAIQDIRISPDNRFLAVGSSEQTVDFYDLTQGTSLNRIGYCKDIPSFVIQMDFSADSKYIQD
IRESfinder result
IRESfinder score
0.334649319
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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