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mmu_circUsp34_2303
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp34_2303
mm39_Chr. Position ID:
chr11|23293319|23320571|+
Gene name:
Usp34
Transcript:
ENSMUST00000180046.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
4,5,6,7,8,9,10,11,12,13,14,15,16,17,18
Exon/intron offsets:
0,191,1830,5831,8272,11525,11686,17959,18267,19257,19738,20471,24019,26919,27124
Genomic length:
27252
Exon/intron sizes in nt:
51,15,06,81,93,62,82,90,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr11:23283859-23293319|chr11:23320571-23323320
Splice length:
2303
Other database IDs:
circAtlas: mmu-Usp34_0007
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GATATATCGACACAAGAAAGTAACATATTAGGGGCATTCTGTGATATGAATGATGTAGAAGTACCCTTGCATTTGCTTCGTTATGTCTGTCTGTTTTGTGGGAAAAATGGCCTTTCTCTCATGAAGGATTGCTTTGAATATGGGACTCCTGAGACGTTACCATTTCTTATAGCACATGCATTTATTACAGTTGTTTCTAATATTAGGATATGGCTACATATCCCTGCTGTCATGCAGCACATTATTCCTTTTAGAACGTATGTTATCAGGTATTTATGCAAGCTCTCTGATCAGGAGTTACGACAGAGTGCGGCTCGTAATATGGCTGACCTAATGTGGAGTACAGTGAAAGAGCCATTGGATACAACACTGTGCTTTGATAAGGAAAGTCTAGACCTTGCATTTAAATACTTTATGTCACCAACTCTGACCATGAGGTTGGCTGGATTGAGTCAGATAACAAATCAGCTCCATACTTTCAATGATGTGTGCAATAACGAATCATTGGTATCAGACACAGAAACGTCCATTGCAAAAGAACTTGCAGACTGGCTTATTAGCAACAATGTAGTAGAACATATATTTGGACCAAATTTACATATTGAGATTATTAAACAGTGCCAAGTGATTTTGAATTTCTTGGCAGCAGAGGGACGACTGAGTACTCAGCATATTGACTGCATTTGGGCTGCAGCACAGCTGAAGCACTGTAGTCGATATATTCATGACTTATTCCCTTCACTCATCAAGAATCTGGATCCTGTGCCACTTAGACATTTACTTAATCTGGTCTCAGCTCTTGAACCAGGTGTTCATACTGAACAGACACTGTACTTGGCATCCATGTTAATTAAAGCTTTGTGGAATAATGCACTTGCAGCTAAGGCTCAGCTGTCTAAACAGAGTTCTTTTGCATCTTTATTAAACACTAATATGCCCATTGGAAACAAGAAAGAGGAAGAAGAGCTTAGAAGAGCAGCTCCTTCACCTTGGTCCCCAGCAGCGAGTCCTCAAAGTAGTGATAACAGTGACACACATCAGAGTGGAGCCAGTGACATTGAAATGGATGAGCAGCTTATTAATAGAAATAAACATGTGCAGCAGCGACTGTCTGACACTGAGGAATCCATGCAAGGAAGTTCTGATGAAACTGCCAACAGTGGTGAAGATGGAAGCAGTGGCCCTGGTAGCAGTAGTGGGCATAGTGATGGATCTAGCAATGAAGTTAATTCAAGCCATGCAAGCCAGTCTGCTGGGAGCCCTGGAAGTGAGGTGCAATCAGAAGACATTGCAGACATCGAGGCCCTTAAAGAAGAAGAGGAAGAGGAGGAGGAAGAAGAAGAAGAGGAAGAGGAAGAAGATGATGAAGAAGAAGAAGATGAAGAAGAAGATGATGATGACGACGATGATCATGGTCACAATCCTGCCAAAAATACTTGTGGTACAGAACTTCGAAACAGAAAGTTAGAAAATCCAGCAGGCATTTGCTTGGGGGAATCCCAAGGCACATCTGAAAGGAATGGGACAAATAGTGGAACTGGAAAGGACCTGGTTTTTAATACTGAGCCATTGCCATCTGTAGATAACCGAATACGAATGCTAGATGCCTGTGCTCACTCTGAAGACCCAGAACATGGCATTTCAGGGGAAGTGAGTTCTGCTCACTTAGCACAAGGTTCTCAGGAGGCTTGTATCACACGAAGTGGGGACTTCCTTGGGGAGACTATTGGGAATGAGTTGTTTAATTGTCGGCAGTTTATTGGTCCACAGCATCACCACCACCACCACCACCACCACCACCATCATCACCATCACCACCACCACCACCACCACCACCACGATGGACATATGGTTGATGATATGCTAAGTGCAGATGATGTCAGTTGCAGTAGCTCCCAGGTCAGTGCAAAATCAGAAAAAAATATGGCTGATTTTGATGGTGAAGAATCTGGATGTGAAGAGGAACTAGTTCAGATAAATTCACATGCAGAACTAACATCTCATCTCCAACAACATCTTCCCAATTTAGCATCTATTTATCATGAACATCTTAGTCAAGGACCTGCAGTTCATAAACATCAATTCAGTAGTAATGCTGTGACAGATATTAATTTGGATAATGTTTGCAAGAAAGGAAATACTTTATTATGGGATATAGTGCAAGATGATGATGCAATTAATCTTTCTGAAGGATTAATAAATGAAGCAGAGAAACTTCTCTGTTCTTTGGTTTGTTGGTTTACGGATAGACAAATTCGAATGAGATTCATTGAAGGCTGCCTTGAAAATTTAGGGAACAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTTGGTTTGTTGGTTTACGGA
58.98
AACGAAGCAAATGCAAGGGT
58.96
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGGTTTGTTGGTTTACGGA
55.7
AACGAAGCAAATGCAAGGGT
58.96
159
PCR template sequence:
AAGCAGAGAAACTTCTCTGTTCTTTGGTTTGTTGGTTTACGGATAGACAAATTCGAATGAGATTCATTGAAGGCTGCCTTGAAAATTTAGGGAACAACAGGATATATCGACACAAGAAAGTAACATATTAGGGGCATTCTGTGATATGAATGATGTAGAAGTACCCTTGCATTTGCTTCGTTATGTCTGTCTGTTTTGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-32-5p(2), mmu-miR-300-3p(2), mmu-miR-221-3p(1), mmu-miR-92a-3p(1), mmu-miR-25-3p(1), mmu-miR-185-5p(1), mmu-miR-139-5p(1), mmu-miR-214-3p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-363-3p(1), mmu-miR-22-3p(1), mmu-miR-301b-3p(1), mmu-miR-758-3p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TAGGGAACAACAGGATATATCGACAC
siRNA sets
GATATATCCTGTTGTTCCC, TATATCCTGTTGTTCCCTA, ATATATCCTGTTGTTCCCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP34_2303_ORF_1
1.0415
0.046075
0.999998313
2289
ORF sequence:
ATGAATGATGTAGAAGTACCCTTGCATTTGCTTCGTTATGTCTGTCTGTTTTGTGGGAAAAATGGCCTTTCTCTCATGAAGGATTGCTTTGAATATGGGACTCCTGAGACGTTACCATTTCTTATAGCACATGCATTTATTACAGTTGTTTCTAATATTAGGATATGGCTACATATCCCTGCTGTCATGCAGCACATTATTCCTTTTAGAACGTATGTTATCAGGTATTTATGCAAGCTCTCTGATCAGGAGTTACGACAGAGTGCGGCTCGTAATATGGCTGACCTAATGTGGAGTACAGTGAAAGAGCCATTGGATACAACACTGTGCTTTGATAAGGAAAGTCTAGACCTTGCATTTAAATACTTTATGTCACCAACTCTGACCATGAGGTTGGCTGGATTGAGTCAGATAACAAATCAGCTCCATACTTTCAATGATGTGTGCAATAACGAATCATTGGTATCAGACACAGAAACGTCCATTGCAAAAGAACTTGCAGACTGGCTTATTAGCAACAATGTAGTAGAACATATATTTGGACCAAATTTACATATTGAGATTATTAAACAGTGCCAAGTGATTTTGAATTTCTTGGCAGCAGAGGGACGACTGAGTACTCAGCATATTGACTGCATTTGGGCTGCAGCACAGCTGAAGCACTGTAGTCGATATATTCATGACTTATTCCCTTCACTCATCAAGAATCTGGATCCTGTGCCACTTAGACATTTACTTAATCTGGTCTCAGCTCTTGAACCAGGTGTTCATACTGAACAGACACTGTACTTGGCATCCATGTTAATTAAAGCTTTGTGGAATAATGCACTTGCAGCTAAGGCTCAGCTGTCTAAACAGAGTTCTTTTGCATCTTTATTAAACACTAATATGCCCATTGGAAACAAGAAAGAGGAAGAAGAGCTTAGAAGAGCAGCTCCTTCACCTTGGTCCCCAGCAGCGAGTCCTCAAAGTAGTGATAACAGTGACACACATCAGAGTGGAGCCAGTGACATTGAAATGGATGAGCAGCTTATTAATAGAAATAAACATGTGCAGCAGCGACTGTCTGACACTGAGGAATCCATGCAAGGAAGTTCTGATGAAACTGCCAACAGTGGTGAAGATGGAAGCAGTGGCCCTGGTAGCAGTAGTGGGCATAGTGATGGATCTAGCAATGAAGTTAATTCAAGCCATGCAAGCCAGTCTGCTGGGAGCCCTGGAAGTGAGGTGCAATCAGAAGACATTGCAGACATCGAGGCCCTTAAAGAAGAAGAGGAAGAGGAGGAGGAAGAAGAAGAAGAGGAAGAGGAAGAAGATGATGAAGAAGAAGAAGATGAAGAAGAAGATGATGATGACGACGATGATCATGGTCACAATCCTGCCAAAAATACTTGTGGTACAGAACTTCGAAACAGAAAGTTAGAAAATCCAGCAGGCATTTGCTTGGGGGAATCCCAAGGCACATCTGAAAGGAATGGGACAAATAGTGGAACTGGAAAGGACCTGGTTTTTAATACTGAGCCATTGCCATCTGTAGATAACCGAATACGAATGCTAGATGCCTGTGCTCACTCTGAAGACCCAGAACATGGCATTTCAGGGGAAGTGAGTTCTGCTCACTTAGCACAAGGTTCTCAGGAGGCTTGTATCACACGAAGTGGGGACTTCCTTGGGGAGACTATTGGGAATGAGTTGTTTAATTGTCGGCAGTTTATTGGTCCACAGCATCACCACCACCACCACCACCACCACCACCATCATCACCATCACCACCACCACCACCACCACCACCACGATGGACATATGGTTGATGATATGCTAAGTGCAGATGATGTCAGTTGCAGTAGCTCCCAGGTCAGTGCAAAATCAGAAAAAAATATGGCTGATTTTGATGGTGAAGAATCTGGATGTGAAGAGGAACTAGTTCAGATAAATTCACATGCAGAACTAACATCTCATCTCCAACAACATCTTCCCAATTTAGCATCTATTTATCATGAACATCTTAGTCAAGGACCTGCAGTTCATAAACATCAATTCAGTAGTAATGCTGTGACAGATATTAATTTGGATAATGTTTGCAAGAAAGGAAATACTTTATTATGGGATATAGTGCAAGATGATGATGCAATTAATCTTTCTGAAGGATTAATAAATGAAGCAGAGAAACTTCTCTGTTCTTTGGTTTGTTGGTTTACGGATAGACAAATTCGAATGAGATTCATTGAAGGCTGCCTTGAAAATTTAGGGAACAACAGGATATATCGACACAAGAAAGTAACATATTAG
Peptide sequence:
MNDVEVPLHLLRYVCLFCGKNGLSLMKDCFEYGTPETLPFLIAHAFITVVSNIRIWLHIPAVMQHIIPFRTYVIRYLCKLSDQELRQSAARNMADLMWSTVKEPLDTTLCFDKESLDLAFKYFMSPTLTMRLAGLSQITNQLHTFNDVCNNESLVSDTETSIAKELADWLISNNVVEHIFGPNLHIEIIKQCQVILNFLAAEGRLSTQHIDCIWAAAQLKHCSRYIHDLFPSLIKNLDPVPLRHLLNLVSALEPGVHTEQTLYLASMLIKALWNNALAAKAQLSKQSSFASLLNTNMPIGNKKEEEELRRAAPSPWSPAASPQSSDNSDTHQSGASDIEMDEQLINRNKHVQQRLSDTEESMQGSSDETANSGEDGSSGPGSSSGHSDGSSNEVNSSHASQSAGSPGSEVQSEDIADIEALKEEEEEEEEEEEEEEEEDDEEEEDEEEDDDDDDDHGHNPAKNTCGTELRNRKLENPAGICLGESQGTSERNGTNSGTGKDLVFNTEPLPSVDNRIRMLDACAHSEDPEHGISGEVSSAHLAQGSQEACITRSGDFLGETIGNELFNCRQFIGPQHHHHHHHHHHHHHHHHHHHHHHHDGHMVDDMLSADDVSCSSSQVSAKSEKNMADFDGEESGCEEELVQINSHAELTSHLQQHLPNLASIYHEHLSQGPAVHKHQFSSNAVTDINLDNVCKKGNTLLWDIVQDDDAINLSEGLINEAEKLLCSLVCWFTDRQIRMRFIEGCLENLGNNRIYRHKKVTY
IRESfinder result
IRESfinder score
0.666922599
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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