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mmu_circUsp7_523
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp7_523
mm39_Chr. Position ID:
chr16|8523949|8528041|-
Gene name:
Usp7
Transcript:
ENSMUST00000160405.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
9,8,7,6,5
Exon/intron offsets:
0,513,1552,2773,3953
Genomic length:
4092
Exon/intron sizes in nt:
55,13,11,09,89,139
Flanking exon/introns:
chr16:8523048-8523949|chr16:8528041-8529857
Splice length:
523
Other database IDs:
circAtlas: mmu-Usp7_0011
Human Ortholog IDs:
Mature spliced Sequence:
GTCGTGGTCCTGCCACGCACAAGCAGTGCTGAAGATAATAAATTACAGGGATGATGACAAATCATTCAGCCGGCGAATCAGCCACTTGTTCTTCCACAAGGAAAACGACTGGGGATTCTCTAATTTCATGGCCTGGAGTGAAGTGACTGATCCTGAGAAAGGATTCATCGATGATGACAAAGTCACCTTTGAAGTTTTTGTACAGGCAGATGCTCCCCATGGAGTTGCGTGGGACTCAAAGAAGCATACTGGCTATGTCGGCTTAAAGAATCAGGGAGCAACGTGTTACATGAATAGCTTGCTGCAGACCTTGTTTTTCACAAATCAGTTACGAAAGGCTGTGTACATGATGCCAACAGAGGGCGATGATTCATCTAAAAGCGTCCCTTTAGCATTACAAAGAGTGTTCTATGAATTACAGCACAGCGATAAGCCCGTAGGAACAAAAAAGCTCACAAAGTCATTTGGGTGGGAAACTTTAGATAGCTTCATGCAACACGATGTTCAAGAGCTTTGTCGAGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTCATTTGGGTGGGAAACT
56.93
TGATTCGCCGGCTGAATGAT
60.18
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTCATTTGGGTGGGAAACT
56.93
CGCCGGCTGAATGATTTGTC
60.25
140
PCR template sequence:
CAGCGATAAGCCCGTAGGAACAAAAAAGCTCACAAAGTCATTTGGGTGGGAAACTTTAGATAGCTTCATGCAACACGATGTTCAAGAGCTTTGTCGAGTGGTCGTGGTCCTGCCACGCACAAGCAGTGCTGAAGATAATAAATTACAGGGATGATGACAAATCATTCAGCCGGCGAATCAGCCACTTGTTCTTCCACAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(1), mmu-miR-155-5p(1), mmu-miR-411-3p(1), mmu-miR-27a-5p(1), mmu-miR-670-5p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTTTGTCGAGTGGTCGTGGTCCTGC
siRNA sets
CAGGACCACGACCACTCGA, AGGACCACGACCACTCGAC, CACGACCACTCGACAAAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP7_523_ORF_1
0.7879
0.163234626
0.691073038
546
ORF sequence:
ATGTTCAAGAGCTTTGTCGAGTGGTCGTGGTCCTGCCACGCACAAGCAGTGCTGAAGATAATAAATTACAGGGATGATGACAAATCATTCAGCCGGCGAATCAGCCACTTGTTCTTCCACAAGGAAAACGACTGGGGATTCTCTAATTTCATGGCCTGGAGTGAAGTGACTGATCCTGAGAAAGGATTCATCGATGATGACAAAGTCACCTTTGAAGTTTTTGTACAGGCAGATGCTCCCCATGGAGTTGCGTGGGACTCAAAGAAGCATACTGGCTATGTCGGCTTAAAGAATCAGGGAGCAACGTGTTACATGAATAGCTTGCTGCAGACCTTGTTTTTCACAAATCAGTTACGAAAGGCTGTGTACATGATGCCAACAGAGGGCGATGATTCATCTAAAAGCGTCCCTTTAGCATTACAAAGAGTGTTCTATGAATTACAGCACAGCGATAAGCCCGTAGGAACAAAAAAGCTCACAAAGTCATTTGGGTGGGAAACTTTAGATAGCTTCATGCAACACGATGTTCAAGAGCTTTGTCGAGTG
Peptide sequence:
MFKSFVEWSWSCHAQAVLKIINYRDDDKSFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDDKVTFEVFVQADAPHGVAWDSKKHTGYVGLKNQGATCYMNSLLQTLFFTNQLRKAVYMMPTEGDDSSKSVPLALQRVFYELQHSDKPVGTKKLTKSFGWETLDSFMQHDVQELCRV
IRESfinder result
IRESfinder score
0.421940886
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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