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mmu_circSenp7_679
Basic information of circular RNA
PanCircBase ID:
mmu_circSenp7_679
mm39_Chr. Position ID:
chr16|55909746|55959463|+
Gene name:
Senp7
Transcript:
ENSMUST00000089362.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
3,4,5,6,7
Exon/intron offsets:
0,7956,22222,34395,49601
Genomic length:
49717
Exon/intron sizes in nt:
81,92,198,192,116
Flanking exon/introns:
chr16:55902771-55909746|chr16:55959463-55971636
Splice length:
679
Other database IDs:
CIRCpedia: MMU_CIRCpedia_226660
CIRCpedia: HSA_CIRCpedia_42848
Human Ortholog IDs:
Mature spliced Sequence:
ATAACAAAGTTGTTAACTGTAAAGTCAGAGGATGTTCTTGCTCAGTCACCATTGTCCAAACTCAGAGGCTCAGAATGCTGGTGGACAAGAAGCCTAAGAAATAAAGTCATCTGTCTAGACCACAAAAAACCAAAAGCTGCCCGTGGGTGTCCTCCTAAGGGATTACCAAAAAGGCATCTCAGAGTTATGTTGACGAATGTTCTATGGACGGACTTAGGACGAGAATTCAGAAAGACCCTGCCTAGAAAGGATGCTAATTTATGTGCTCCCAGCAAGGTGCAATCAGACTCATTGCCTTCGACATCTGTTGACAGCATAGAGACATGTCAAAGATTAGATCCTCTTCACCAAAGCCTTAATTTATCCGAAAGGACACCCAGAGTTATACTGACGGATATCCGGCAAACAGAATTAGGAAGAAAATATTTAAAGATCCCACCTGTAACTGAGGCCAGTTTGAGTGATACAGCCAACCTGAAATCAGAGCAACTTTCTTCATCATCTGATGGCAGCTTAGAGTCTTGTCAGAGTGTAAATCATCACAAGAGCTTTTTATCTGAAAGTGGTCCCAAACCAAGTAGGACAGGTGACGTTCCTGCAAAGGAGGCTGCATGTGGGGGACAGAAGCAGGGTGATGATGGAGGAGTCACTCCTGAGATGGCTGCTCCTCATCCTAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGGGTGATGATGGAGGAG
59.89
TGTCCACCAGCATTCTGAGC
60.32
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGGGTGATGATGGAGGAG
59.89
TAGGCTTCTTGTCCACCAGC
59.68
149
PCR template sequence:
AGGACAGGTGACGTTCCTGCAAAGGAGGCTGCATGTGGGGGACAGAAGCAGGGTGATGATGGAGGAGTCACTCCTGAGATGGCTGCTCCTCATCCTAAAGATAACAAAGTTGTTAACTGTAAAGTCAGAGGATGTTCTTGCTCAGTCACCATTGTCCAAACTCAGAGGCTCAGAATGCTGGTGGACAAGAAGCCTAAGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-32-5p(1), mmu-miR-92a-3p(1), mmu-miR-25-3p(1), mmu-miR-22-3p(1), mmu-miR-188-3p(1), mmu-miR-3470b(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTCATCCTAAAGATAACAAAGTTGT
siRNA sets
CAACTTTGTTATCTTTAGG, AACTTTGTTATCTTTAGGA, ACAACTTTGTTATCTTTAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSENP7_679_ORF_1
0.6856
-0.047819792
0.735360559
723
ORF sequence:
ATGATGGAGGAGTCACTCCTGAGATGGCTGCTCCTCATCCTAAAGATAACAAAGTTGTTAACTGTAAAGTCAGAGGATGTTCTTGCTCAGTCACCATTGTCCAAACTCAGAGGCTCAGAATGCTGGTGGACAAGAAGCCTAAGAAATAAAGTCATCTGTCTAGACCACAAAAAACCAAAAGCTGCCCGTGGGTGTCCTCCTAAGGGATTACCAAAAAGGCATCTCAGAGTTATGTTGACGAATGTTCTATGGACGGACTTAGGACGAGAATTCAGAAAGACCCTGCCTAGAAAGGATGCTAATTTATGTGCTCCCAGCAAGGTGCAATCAGACTCATTGCCTTCGACATCTGTTGACAGCATAGAGACATGTCAAAGATTAGATCCTCTTCACCAAAGCCTTAATTTATCCGAAAGGACACCCAGAGTTATACTGACGGATATCCGGCAAACAGAATTAGGAAGAAAATATTTAAAGATCCCACCTGTAACTGAGGCCAGTTTGAGTGATACAGCCAACCTGAAATCAGAGCAACTTTCTTCATCATCTGATGGCAGCTTAGAGTCTTGTCAGAGTGTAAATCATCACAAGAGCTTTTTATCTGAAAGTGGTCCCAAACCAAGTAGGACAGGTGACGTTCCTGCAAAGGAGGCTGCATGTGGGGGACAGAAGCAGGGTGATGATGGAGGAGTCACTCCTGAGATGGCTGCTCCTCATCCTAAA
Peptide sequence:
MMEESLLRWLLLILKITKLLTVKSEDVLAQSPLSKLRGSECWWTRSLRNKVICLDHKKPKAARGCPPKGLPKRHLRVMLTNVLWTDLGREFRKTLPRKDANLCAPSKVQSDSLPSTSVDSIETCQRLDPLHQSLNLSERTPRVILTDIRQTELGRKYLKIPPVTEASLSDTANLKSEQLSSSSDGSLESCQSVNHHKSFLSESGPKPSRTGDVPAKEAACGGQKQGDDGGVTPEMAAPHPK
IRESfinder result
IRESfinder score
0.535415771
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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