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mmu_circUsp34_2028
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp34_2028
mm39_Chr. Position ID:
chr11|23311278|23331379|+
Gene name:
Usp34
Transcript:
ENSMUST00000180046.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
11,12,13,14,15,16,17,18,19,20,21,22
Exon/intron offsets:
0,308,1298,1779,2512,6060,8960,9165,12042,13722,16276,19946
Genomic length:
20101
Exon/intron sizes in nt:
1,26,13,03,61,31,72,22,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr11:23305098-23311278|chr11:23331379-23332553
Splice length:
2028
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTGAAGCACTGTAGTCGATATATTCATGACTTATTCCCTTCACTCATCAAGAATCTGGATCCTGTGCCACTTAGACATTTACTTAATCTGGTCTCAGCTCTTGAACCAGGTGTTCATACTGAACAGACACTGTACTTGGCATCCATGTTAATTAAAGCTTTGTGGAATAATGCACTTGCAGCTAAGGCTCAGCTGTCTAAACAGAGTTCTTTTGCATCTTTATTAAACACTAATATGCCCATTGGAAACAAGAAAGAGGAAGAAGAGCTTAGAAGAGCAGCTCCTTCACCTTGGTCCCCAGCAGCGAGTCCTCAAAGTAGTGATAACAGTGACACACATCAGAGTGGAGCCAGTGACATTGAAATGGATGAGCAGCTTATTAATAGAAATAAACATGTGCAGCAGCGACTGTCTGACACTGAGGAATCCATGCAAGGAAGTTCTGATGAAACTGCCAACAGTGGTGAAGATGGAAGCAGTGGCCCTGGTAGCAGTAGTGGGCATAGTGATGGATCTAGCAATGAAGTTAATTCAAGCCATGCAAGCCAGTCTGCTGGGAGCCCTGGAAGTGAGGTGCAATCAGAAGACATTGCAGACATCGAGGCCCTTAAAGAAGAAGAGGAAGAGGAGGAGGAAGAAGAAGAAGAGGAAGAGGAAGAAGATGATGAAGAAGAAGAAGATGAAGAAGAAGATGATGATGACGACGATGATCATGGTCACAATCCTGCCAAAAATACTTGTGGTACAGAACTTCGAAACAGAAAGTTAGAAAATCCAGCAGGCATTTGCTTGGGGGAATCCCAAGGCACATCTGAAAGGAATGGGACAAATAGTGGAACTGGAAAGGACCTGGTTTTTAATACTGAGCCATTGCCATCTGTAGATAACCGAATACGAATGCTAGATGCCTGTGCTCACTCTGAAGACCCAGAACATGGCATTTCAGGGGAAGTGAGTTCTGCTCACTTAGCACAAGGTTCTCAGGAGGCTTGTATCACACGAAGTGGGGACTTCCTTGGGGAGACTATTGGGAATGAGTTGTTTAATTGTCGGCAGTTTATTGGTCCACAGCATCACCACCACCACCACCACCACCACCACCATCATCACCATCACCACCACCACCACCACCACCACCACGATGGACATATGGTTGATGATATGCTAAGTGCAGATGATGTCAGTTGCAGTAGCTCCCAGGTCAGTGCAAAATCAGAAAAAAATATGGCTGATTTTGATGGTGAAGAATCTGGATGTGAAGAGGAACTAGTTCAGATAAATTCACATGCAGAACTAACATCTCATCTCCAACAACATCTTCCCAATTTAGCATCTATTTATCATGAACATCTTAGTCAAGGACCTGCAGTTCATAAACATCAATTCAGTAGTAATGCTGTGACAGATATTAATTTGGATAATGTTTGCAAGAAAGGAAATACTTTATTATGGGATATAGTGCAAGATGATGATGCAATTAATCTTTCTGAAGGATTAATAAATGAAGCAGAGAAACTTCTCTGTTCTTTGGTTTGTTGGTTTACGGATAGACAAATTCGAATGAGATTCATTGAAGGCTGCCTTGAAAATTTAGGGAACAACAGATCAGTGGTGATTTCACTTCGTCTTCTTCCAAAACTGTTTGGTACTTTTCAGCAGTTTGGAAGCAGTTATGATACTCATTGGATTACAATGTGGGCAGAGAAAGAACTGAACATGATGAAGCTTTTCTTTGACAATCTGGTGTATTACATTCAAGGTATAAGGGAAGGCAGACAAAAGCATGCACTGTACAGCCATAGTGCCGAAGTTCAAGTTCGACTTCAGTTCCTGACCTGTGTGTTTTCAACCCTGGGATCCCCTGATCACTTCAGGTTAAGTTTAGAGCAAGTGGACATTTTATGGCATTGTTTGGTAGAAGACTCTGAGTGCTATGATGATGCACTTCATTGGTTTTTAAATCAAGTTCGAAGTAAAGATCAACATGCAATGGGAATGGAAACCTATAAACATCTTTTCCTGGAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTATGATGATGCACTTCATTGG
59.72
GTGGCACAGGATCCAGATTCT
59.79
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTATGATGATGCACTTCATTGG
59.72
AGTGGCACAGGATCCAGATTC
59.79
170
PCR template sequence:
GTGCTATGATGATGCACTTCATTGGTTTTTAAATCAAGTTCGAAGTAAAGATCAACATGCAATGGGAATGGAAACCTATAAACATCTTTTCCTGGAGAAGCTGAAGCACTGTAGTCGATATATTCATGACTTATTCCCTTCACTCATCAAGAATCTGGATCCTGTGCCACTTAGACATTTACTTAATCTGGTCTCAGCTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-32-5p(1), mmu-miR-92a-3p(1), mmu-miR-152-3p(1), mmu-miR-25-3p(1), mmu-miR-139-5p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-22-3p(1), mmu-miR-758-3p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-532-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTCCTGGAGAAGCTGAAGCACTGTA
siRNA sets
TACAGTGCTTCAGCTTCTC,ACAGTGCTTCAGCTTCTCC,AGTGCTTCAGCTTCTCCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP34_2028_ORF_1
1.1295
0.076531333
1
3912
ORF sequence:
ATGTTAATTAAAGCTTTGTGGAATAATGCACTTGCAGCTAAGGCTCAGCTGTCTAAACAGAGTTCTTTTGCATCTTTATTAAACACTAATATGCCCATTGGAAACAAGAAAGAGGAAGAAGAGCTTAGAAGAGCAGCTCCTTCACCTTGGTCCCCAGCAGCGAGTCCTCAAAGTAGTGATAACAGTGACACACATCAGAGTGGAGCCAGTGACATTGAAATGGATGAGCAGCTTATTAATAGAAATAAACATGTGCAGCAGCGACTGTCTGACACTGAGGAATCCATGCAAGGAAGTTCTGATGAAACTGCCAACAGTGGTGAAGATGGAAGCAGTGGCCCTGGTAGCAGTAGTGGGCATAGTGATGGATCTAGCAATGAAGTTAATTCAAGCCATGCAAGCCAGTCTGCTGGGAGCCCTGGAAGTGAGGTGCAATCAGAAGACATTGCAGACATCGAGGCCCTTAAAGAAGAAGAGGAAGAGGAGGAGGAAGAAGAAGAAGAGGAAGAGGAAGAAGATGATGAAGAAGAAGAAGATGAAGAAGAAGATGATGATGACGACGATGATCATGGTCACAATCCTGCCAAAAATACTTGTGGTACAGAACTTCGAAACAGAAAGTTAGAAAATCCAGCAGGCATTTGCTTGGGGGAATCCCAAGGCACATCTGAAAGGAATGGGACAAATAGTGGAACTGGAAAGGACCTGGTTTTTAATACTGAGCCATTGCCATCTGTAGATAACCGAATACGAATGCTAGATGCCTGTGCTCACTCTGAAGACCCAGAACATGGCATTTCAGGGGAAGTGAGTTCTGCTCACTTAGCACAAGGTTCTCAGGAGGCTTGTATCACACGAAGTGGGGACTTCCTTGGGGAGACTATTGGGAATGAGTTGTTTAATTGTCGGCAGTTTATTGGTCCACAGCATCACCACCACCACCACCACCACCACCACCATCATCACCATCACCACCACCACCACCACCACCACCACGATGGACATATGGTTGATGATATGCTAAGTGCAGATGATGTCAGTTGCAGTAGCTCCCAGGTCAGTGCAAAATCAGAAAAAAATATGGCTGATTTTGATGGTGAAGAATCTGGATGTGAAGAGGAACTAGTTCAGATAAATTCACATGCAGAACTAACATCTCATCTCCAACAACATCTTCCCAATTTAGCATCTATTTATCATGAACATCTTAGTCAAGGACCTGCAGTTCATAAACATCAATTCAGTAGTAATGCTGTGACAGATATTAATTTGGATAATGTTTGCAAGAAAGGAAATACTTTATTATGGGATATAGTGCAAGATGATGATGCAATTAATCTTTCTGAAGGATTAATAAATGAAGCAGAGAAACTTCTCTGTTCTTTGGTTTGTTGGTTTACGGATAGACAAATTCGAATGAGATTCATTGAAGGCTGCCTTGAAAATTTAGGGAACAACAGATCAGTGGTGATTTCACTTCGTCTTCTTCCAAAACTGTTTGGTACTTTTCAGCAGTTTGGAAGCAGTTATGATACTCATTGGATTACAATGTGGGCAGAGAAAGAACTGAACATGATGAAGCTTTTCTTTGACAATCTGGTGTATTACATTCAAGGTATAAGGGAAGGCAGACAAAAGCATGCACTGTACAGCCATAGTGCCGAAGTTCAAGTTCGACTTCAGTTCCTGACCTGTGTGTTTTCAACCCTGGGATCCCCTGATCACTTCAGGTTAAGTTTAGAGCAAGTGGACATTTTATGGCATTGTTTGGTAGAAGACTCTGAGTGCTATGATGATGCACTTCATTGGTTTTTAAATCAAGTTCGAAGTAAAGATCAACATGCAATGGGAATGGAAACCTATAAACATCTTTTCCTGGAGAAGCTGAAGCACTGTAGTCGATATATTCATGACTTATTCCCTTCACTCATCAAGAATCTGGATCCTGTGCCACTTAGACATTTACTTAATCTGGTCTCAGCTCTTGAACCAGGTGTTCATACTGAACAGACACTGTACTTGGCATCCATGTTAATTAAAGCTTTGTGGAATAATGCACTTGCAGCTAAGGCTCAGCTGTCTAAACAGAGTTCTTTTGCATCTTTATTAAACACTAATATGCCCATTGGAAACAAGAAAGAGGAAGAAGAGCTTAGAAGAGCAGCTCCTTCACCTTGGTCCCCAGCAGCGAGTCCTCAAAGTAGTGATAACAGTGACACACATCAGAGTGGAGCCAGTGACATTGAAATGGATGAGCAGCTTATTAATAGAAATAAACATGTGCAGCAGCGACTGTCTGACACTGAGGAATCCATGCAAGGAAGTTCTGATGAAACTGCCAACAGTGGTGAAGATGGAAGCAGTGGCCCTGGTAGCAGTAGTGGGCATAGTGATGGATCTAGCAATGAAGTTAATTCAAGCCATGCAAGCCAGTCTGCTGGGAGCCCTGGAAGTGAGGTGCAATCAGAAGACATTGCAGACATCGAGGCCCTTAAAGAAGAAGAGGAAGAGGAGGAGGAAGAAGAAGAAGAGGAAGAGGAAGAAGATGATGAAGAAGAAGAAGATGAAGAAGAAGATGATGATGACGACGATGATCATGGTCACAATCCTGCCAAAAATACTTGTGGTACAGAACTTCGAAACAGAAAGTTAGAAAATCCAGCAGGCATTTGCTTGGGGGAATCCCAAGGCACATCTGAAAGGAATGGGACAAATAGTGGAACTGGAAAGGACCTGGTTTTTAATACTGAGCCATTGCCATCTGTAGATAACCGAATACGAATGCTAGATGCCTGTGCTCACTCTGAAGACCCAGAACATGGCATTTCAGGGGAAGTGAGTTCTGCTCACTTAGCACAAGGTTCTCAGGAGGCTTGTATCACACGAAGTGGGGACTTCCTTGGGGAGACTATTGGGAATGAGTTGTTTAATTGTCGGCAGTTTATTGGTCCACAGCATCACCACCACCACCACCACCACCACCACCATCATCACCATCACCACCACCACCACCACCACCACCACGATGGACATATGGTTGATGATATGCTAAGTGCAGATGATGTCAGTTGCAGTAGCTCCCAGGTCAGTGCAAAATCAGAAAAAAATATGGCTGATTTTGATGGTGAAGAATCTGGATGTGAAGAGGAACTAGTTCAGATAAATTCACATGCAGAACTAACATCTCATCTCCAACAACATCTTCCCAATTTAGCATCTATTTATCATGAACATCTTAGTCAAGGACCTGCAGTTCATAAACATCAATTCAGTAGTAATGCTGTGACAGATATTAATTTGGATAATGTTTGCAAGAAAGGAAATACTTTATTATGGGATATAGTGCAAGATGATGATGCAATTAATCTTTCTGAAGGATTAATAAATGAAGCAGAGAAACTTCTCTGTTCTTTGGTTTGTTGGTTTACGGATAGACAAATTCGAATGAGATTCATTGAAGGCTGCCTTGAAAATTTAGGGAACAACAGATCAGTGGTGATTTCACTTCGTCTTCTTCCAAAACTGTTTGGTACTTTTCAGCAGTTTGGAAGCAGTTATGATACTCATTGGATTACAATGTGGGCAGAGAAAGAACTGAACATGATGAAGCTTTTCTTTGACAATCTGGTGTATTACATTCAAGGTATAAGGGAAGGCAGACAAAAGCATGCACTGTACAGCCATAGTGCCGAAGTTCAAGTTCGACTTCAGTTCCTGACCTGTGTGTTTTCAACCCTGGGATCCCCTGATCACTTCAGGTTAAGTTTAGAGCAAGTGGACATTTTATGGCATTGTTTGGTAGAAGACTCTGAGTGCTATGATGATGCACTTCATTGGTTTTTAAATCAAGTTCGAAGTAAAGATCAACATGCAATGGGAATGGAAACCTATAAACATCTTTTCCTGGAGAAG
Peptide sequence:
MLIKALWNNALAAKAQLSKQSSFASLLNTNMPIGNKKEEEELRRAAPSPWSPAASPQSSDNSDTHQSGASDIEMDEQLINRNKHVQQRLSDTEESMQGSSDETANSGEDGSSGPGSSSGHSDGSSNEVNSSHASQSAGSPGSEVQSEDIADIEALKEEEEEEEEEEEEEEEEDDEEEEDEEEDDDDDDDHGHNPAKNTCGTELRNRKLENPAGICLGESQGTSERNGTNSGTGKDLVFNTEPLPSVDNRIRMLDACAHSEDPEHGISGEVSSAHLAQGSQEACITRSGDFLGETIGNELFNCRQFIGPQHHHHHHHHHHHHHHHHHHHHHHHDGHMVDDMLSADDVSCSSSQVSAKSEKNMADFDGEESGCEEELVQINSHAELTSHLQQHLPNLASIYHEHLSQGPAVHKHQFSSNAVTDINLDNVCKKGNTLLWDIVQDDDAINLSEGLINEAEKLLCSLVCWFTDRQIRMRFIEGCLENLGNNRSVVISLRLLPKLFGTFQQFGSSYDTHWITMWAEKELNMMKLFFDNLVYYIQGIREGRQKHALYSHSAEVQVRLQFLTCVFSTLGSPDHFRLSLEQVDILWHCLVEDSECYDDALHWFLNQVRSKDQHAMGMETYKHLFLEKLKHCSRYIHDLFPSLIKNLDPVPLRHLLNLVSALEPGVHTEQTLYLASMLIKALWNNALAAKAQLSKQSSFASLLNTNMPIGNKKEEEELRRAAPSPWSPAASPQSSDNSDTHQSGASDIEMDEQLINRNKHVQQRLSDTEESMQGSSDETANSGEDGSSGPGSSSGHSDGSSNEVNSSHASQSAGSPGSEVQSEDIADIEALKEEEEEEEEEEEEEEEEDDEEEEDEEEDDDDDDDHGHNPAKNTCGTELRNRKLENPAGICLGESQGTSERNGTNSGTGKDLVFNTEPLPSVDNRIRMLDACAHSEDPEHGISGEVSSAHLAQGSQEACITRSGDFLGETIGNELFNCRQFIGPQHHHHHHHHHHHHHHHHHHHHHHHDGHMVDDMLSADDVSCSSSQVSAKSEKNMADFDGEESGCEEELVQINSHAELTSHLQQHLPNLASIYHEHLSQGPAVHKHQFSSNAVTDINLDNVCKKGNTLLWDIVQDDDAINLSEGLINEAEKLLCSLVCWFTDRQIRMRFIEGCLENLGNNRSVVISLRLLPKLFGTFQQFGSSYDTHWITMWAEKELNMMKLFFDNLVYYIQGIREGRQKHALYSHSAEVQVRLQFLTCVFSTLGSPDHFRLSLEQVDILWHCLVEDSECYDDALHWFLNQVRSKDQHAMGMETYKHLFLEK
IRESfinder result
IRESfinder score
0.67500872
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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