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mmu_circSenp7_910
Basic information of circular RNA
PanCircBase ID:
mmu_circSenp7_910
mm39_Chr. Position ID:
chr16|55986195|55999412|+
Gene name:
Senp7
Transcript:
ENSMUST00000089360.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
12,13,14,15,16,17
Exon/intron offsets:
0,3862,5917,7324,9964,13124
Genomic length:
13217
Exon/intron sizes in nt:
180,263,134,117,123,93
Flanking exon/introns:
chr16:55982771-55986195|chr16:55999412-55999860
Splice length:
910
Other database IDs:
CIRCpedia: MMU_CIRCpedia_221588, circAtlas: mmu-Senp7_0057
Human Ortholog IDs:
Mature spliced Sequence:
TGTCCACAAATGAGATTTCCCTGACAGTGGACACCGCACGTTTAAAGAGGTTCGGGTTATGGGAAAGCAAGGATGAGGACCACAGCAAGAGGAGCCACGCTATCCTTTTCCTCTGGCTTTCCTCAGACTACCTTCAAGACATTCAGACCCAGCTAGAAAACCCCATGCTAAGCCAGCAATCAAAAGCCAATGAATTTATTTTCCTTGAGTTAAACAGTTCCATTTCACAAAGAGAAGAATTGAAATTGAAAGATATTATGATGGAAATCAGTACAAAAAATGGAAATTTACACCTGTCTTGTCCATTGCCCTGGGTCCAGGCACTTCCTTTGTTTCAGGATCTCTCTCCACAAGAAATCTCTTTTCTTCACTATTACTATGCTTCAGCTTCTGCTCTCCCCACTGCTGCTGGGGCAGACATGAAGAAGAAGTCAGTGTCTCAGCCCTCAAATTCAGACACCATCAAGCCTACTTACACCTTCCTACATAAACAAAGTAGTGGTTGCTACTCGCTCTCTATTACTTCAAGTCCAGAGGAGGAATGGCAGGAAGTCAGGAACACGGGACCCGTTCAGAAGTTGATTGTTTATCCTCCACCACCTACTAAGGGAGGCTTGGGAGTAACTAATGAAGATCTAGAGTGTTTAGAAGAAGGAGAATTTCTTAACGATGTAATCATTGACTTTTACCTTAAGTATCTTCTATTGGAGAAGGCATCAGATGAACTTGTTGAACGAAGTCACATTTTTAGTAGCTTTTTCTATAAATGCTTGACAAGAAAGGAAAATAATTTAACAGAAGATAATCCAGATCTATCAGTGGCTCAGAGGAGACACCGAAGAGTGAGAACATGGACTCGTCATATAAACATTTTTAATAAAGACTACATCTTTGTACCTGTTAATGAATC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCAGAGGAGACACCGAAG
59.83
TGCTGTGGTCCTCATCCTTG
59.67
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCAGAGGAGACACCGAAG
59.83
TCTTGCTGTGGTCCTCATCC
59.38
179
PCR template sequence:
ATCTATCAGTGGCTCAGAGGAGACACCGAAGAGTGAGAACATGGACTCGTCATATAAACATTTTTAATAAAGACTACATCTTTGTACCTGTTAATGAATCTGTCCACAAATGAGATTTCCCTGACAGTGGACACCGCACGTTTAAAGAGGTTCGGGTTATGGGAAAGCAAGGATGAGGACCACAGCAAGAGGAGCCACGC
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-335-3p(2), mmu-miR-150-5p(1), mmu-miR-196a-5p(1), mmu-miR-136-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-539-5p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGTTAATGAATCTGTCCACAAATGA
siRNA sets
TCATTTGTGGACAGATTCA, ATTTGTGGACAGATTCATT, TTTGTGGACAGATTCATTA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSENP7_910_ORF_1
0.7604
0.018450052
0.943041459
915
ORF sequence:
ATGAATCTGTCCACAAATGAGATTTCCCTGACAGTGGACACCGCACGTTTAAAGAGGTTCGGGTTATGGGAAAGCAAGGATGAGGACCACAGCAAGAGGAGCCACGCTATCCTTTTCCTCTGGCTTTCCTCAGACTACCTTCAAGACATTCAGACCCAGCTAGAAAACCCCATGCTAAGCCAGCAATCAAAAGCCAATGAATTTATTTTCCTTGAGTTAAACAGTTCCATTTCACAAAGAGAAGAATTGAAATTGAAAGATATTATGATGGAAATCAGTACAAAAAATGGAAATTTACACCTGTCTTGTCCATTGCCCTGGGTCCAGGCACTTCCTTTGTTTCAGGATCTCTCTCCACAAGAAATCTCTTTTCTTCACTATTACTATGCTTCAGCTTCTGCTCTCCCCACTGCTGCTGGGGCAGACATGAAGAAGAAGTCAGTGTCTCAGCCCTCAAATTCAGACACCATCAAGCCTACTTACACCTTCCTACATAAACAAAGTAGTGGTTGCTACTCGCTCTCTATTACTTCAAGTCCAGAGGAGGAATGGCAGGAAGTCAGGAACACGGGACCCGTTCAGAAGTTGATTGTTTATCCTCCACCACCTACTAAGGGAGGCTTGGGAGTAACTAATGAAGATCTAGAGTGTTTAGAAGAAGGAGAATTTCTTAACGATGTAATCATTGACTTTTACCTTAAGTATCTTCTATTGGAGAAGGCATCAGATGAACTTGTTGAACGAAGTCACATTTTTAGTAGCTTTTTCTATAAATGCTTGACAAGAAAGGAAAATAATTTAACAGAAGATAATCCAGATCTATCAGTGGCTCAGAGGAGACACCGAAGAGTGAGAACATGGACTCGTCATATAAACATTTTTAATAAAGACTACATCTTTGTACCTGTTAATGAA
Peptide sequence:
MNLSTNEISLTVDTARLKRFGLWESKDEDHSKRSHAILFLWLSSDYLQDIQTQLENPMLSQQSKANEFIFLELNSSISQREELKLKDIMMEISTKNGNLHLSCPLPWVQALPLFQDLSPQEISFLHYYYASASALPTAAGADMKKKSVSQPSNSDTIKPTYTFLHKQSSGCYSLSITSSPEEEWQEVRNTGPVQKLIVYPPPPTKGGLGVTNEDLECLEEGEFLNDVIIDFYLKYLLLEKASDELVERSHIFSSFFYKCLTRKENNLTEDNPDLSVAQRRHRRVRTWTRHINIFNKDYIFVPVNE
IRESfinder result
IRESfinder score
0.851738173
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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