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mmu_circUsp7_988
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp7_988
mm39_Chr. Position ID:
chr16|8516315|8524004|-
Gene name:
Usp7
Transcript:
ENSMUST00000160405.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
17,16,15,14,13,12,11,10,9
Exon/intron offsets:
0,268,691,1594,3510,5012,6476,6652,7634
Genomic length:
7689
Exon/intron sizes in nt:
135,131,145,157,110,83,91,81,55
Flanking exon/introns:
chr16:8515858-8516315|chr16:8524004-8524462
Splice length:
988
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGGGAAACTTTAGATAGCTTCATGCAACACGATGTTCAAGAGCTTTGTCGAGTGTTGCTTGATAATGTGGAAAATAAGATGAAAGGCACCTGTGTAGAGGGCACCATTCCAAAGTTATTCCGAGGCAAAATGGTGTCCTATATTCAGTGCAAAGACGTAGACTACCGTTCTGATAGGAGAGAAGATTATTATGATATCCAGCTAAGTATAAAAGGAAAGAAAAACATATTTGAATCATTTGTGGATTATGTGGCAGTAGAACAACTAGACGGTGACAATAAATACGATGCTGGGGAGCATGGCCTGCAGGAGGCAGAGAAAGGTGTGAAATTCCTAACATTGCCCCCAGTGTTACACCTGCAACTTATGAGGTTCATGTATGACCCTCAGACGGACCAAAACATCAAGATCAATGACAGGTTTGAGTTTCCAGAACAGTTACCACTTGATGAATTTTTGCAAAAAACAGACCCTAAGGACCCTGCAAATTATATTCTCCATGCAGTCTTGGTTCACAGTGGAGATAATCATGGTGGACATTACGTGGTTTACCTAAACCCCAAAGGGGATGGCAAATGGTGTAAGTTCGATGATGACGTGGTATCCAGGTGTACTAAAGAAGAAGCCATTGAGCACAATTATGGGGGTCATGATGATGATCTGTCTGTTCGACACTGCACAAATGCCTATATGTTAGTGTACATCAGGGAATCAAAGCTAAGTGAAGTGTTACAAGCTGTCACCGACCATGATATTCCTCAGCAGTTGGTGGAACGATTGCAAGAAGAGAAAAGGATCGAGGCTCAGAAGCGGAAGGAGCGGCAGGAAGCCCATCTCTACATGCAAGTGCAGATAGTTGCAGAGGACCAGTTTTGTGGCCACCAAGGAAATGACATGTACGACGAGGAGAAAGTGAGGTACACTGTGTTCAAGGTTCTGAAGAACTCCTCCCTGGCCGAGTTTGTTCAGAGCCTCTCCCAGACCATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGACGAGGAGAAAGTGAGGT
59.12
AGCAACACTCGACAAAGCTCT
60.2
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACGACGAGGAGAAAGTGAGG
59.12
AGCAACACTCGACAAAGCTCT
60.2
149
PCR template sequence:
AAATGACATGTACGACGAGGAGAAAGTGAGGTACACTGTGTTCAAGGTTCTGAAGAACTCCTCCCTGGCCGAGTTTGTTCAGAGCCTCTCCCAGACCATGGTGGGAAACTTTAGATAGCTTCATGCAACACGATGTTCAAGAGCTTTGTCGAGTGTTGCTTGATAATGTGGAAAATAAGATGAAAGGCACCTGTGTAGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-135a-5p(1), mmu-miR-200c-3p(1), mmu-miR-217-5p(1), mmu-miR-495-3p(1), mmu-miR-128-3p(1), mmu-miR-670-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCCCAGACCATGGTGGGAAACTTTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP7_988_ORF_1
1.1172
0.250545625
0.992707187
984
ORF sequence:
ATGCAACACGATGTTCAAGAGCTTTGTCGAGTGTTGCTTGATAATGTGGAAAATAAGATGAAAGGCACCTGTGTAGAGGGCACCATTCCAAAGTTATTCCGAGGCAAAATGGTGTCCTATATTCAGTGCAAAGACGTAGACTACCGTTCTGATAGGAGAGAAGATTATTATGATATCCAGCTAAGTATAAAAGGAAAGAAAAACATATTTGAATCATTTGTGGATTATGTGGCAGTAGAACAACTAGACGGTGACAATAAATACGATGCTGGGGAGCATGGCCTGCAGGAGGCAGAGAAAGGTGTGAAATTCCTAACATTGCCCCCAGTGTTACACCTGCAACTTATGAGGTTCATGTATGACCCTCAGACGGACCAAAACATCAAGATCAATGACAGGTTTGAGTTTCCAGAACAGTTACCACTTGATGAATTTTTGCAAAAAACAGACCCTAAGGACCCTGCAAATTATATTCTCCATGCAGTCTTGGTTCACAGTGGAGATAATCATGGTGGACATTACGTGGTTTACCTAAACCCCAAAGGGGATGGCAAATGGTGTAAGTTCGATGATGACGTGGTATCCAGGTGTACTAAAGAAGAAGCCATTGAGCACAATTATGGGGGTCATGATGATGATCTGTCTGTTCGACACTGCACAAATGCCTATATGTTAGTGTACATCAGGGAATCAAAGCTAAGTGAAGTGTTACAAGCTGTCACCGACCATGATATTCCTCAGCAGTTGGTGGAACGATTGCAAGAAGAGAAAAGGATCGAGGCTCAGAAGCGGAAGGAGCGGCAGGAAGCCCATCTCTACATGCAAGTGCAGATAGTTGCAGAGGACCAGTTTTGTGGCCACCAAGGAAATGACATGTACGACGAGGAGAAAGTGAGGTACACTGTGTTCAAGGTTCTGAAGAACTCCTCCCTGGCCGAGTTTGTTCAGAGCCTCTCCCAGACCATGGTGGGAAACTTTAGATAG
Peptide sequence:
MQHDVQELCRVLLDNVENKMKGTCVEGTIPKLFRGKMVSYIQCKDVDYRSDRREDYYDIQLSIKGKKNIFESFVDYVAVEQLDGDNKYDAGEHGLQEAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFPEQLPLDEFLQKTDPKDPANYILHAVLVHSGDNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHDDDLSVRHCTNAYMLVYIRESKLSEVLQAVTDHDIPQQLVERLQEEKRIEAQKRKERQEAHLYMQVQIVAEDQFCGHQGNDMYDEEKVRYTVFKVLKNSSLAEFVQSLSQTMVGNFR
IRESfinder result
IRESfinder score
0.416024766
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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