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mmu_circUsp37_742
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp37_742
mm39_Chr. Position ID:
chr1|74483571|74495379|-
Gene name:
Usp37
Transcript:
ENSMUST00000044260.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
21,20,19,18,17
Exon/intron offsets:
0,6082,8274,9415,11666
Genomic length:
11808
Exon/intron sizes in nt:
1,16,61,16,72,56,142
Flanking exon/introns:
chr1:74480760-74483571|chr1:74495379-74500724
Splice length:
742
Other database IDs:
CIRCpedia: MMU_CIRCpedia_28723, circAtlas: mmu-Usp37_0017
Human Ortholog IDs:
Mature spliced Sequence:
GAAATTCACCTTCAAATCCAAGAGCTCCGTGACATCATGCCTTGATTCAGACAGTGAGGATGAACTTAAACGCTCTGTGGTCCTCAGTCAGAGACTTTGTGATTTGCCAGGCAATGAACAGTACCAGGAAGATGTGGAAAAAGATTTGAAATTGTGCAGATTAGAGCCTGGGAAGGCAGAACTGGAGAACTCAGGATTTGACAGAATGAGTGAGGAAGAGGTGCTGGCAGCTGTGTTAGAGATAAGCAGGAGAGAAGCTTCGCCGGTACTTAGCCCTGAAGATGATGATAAGCCAACCAGCAGTCCGGACACCGGCTTTGCAGAAGATGATATTCCAGAAATGCCTGAAAATCCAGATGCTATGGAAATTGAGAAGTCCAAAACAATCACTGAGCCAGGTCCTGCTAGTTTTACTGAGATAACAAAAGACTGTGATGAGAATAAAGAAAACAAAACTCCAGAAGGCTCTCAGGGAGAGGTTGATTGGCTCCAGCAGTATGACGTAGACCGGGAAAGAGAAGAGCAGGAGCTGCAGCAAGCACTGGCTCAGAGCCTTCAAGAGCAAGAGGCTTGGGAACAGAAGGAAGATGACGACCTCAAAAGGGCTACAGAATTAAGTCTTCAAGAGTTTAACAACTCTTTTCTGGATTCCCTGGGCTCAGATGAGGACTCTGGAAATGAGGATGTTTTTGATATGGAGTACACAGAAGCTGAAGCTGAGGAGCTGAAAAGAAATGCTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGCTCAGATGAGGACTCT
59.66
CTGAGGACCACAGAGCGTTT
59.97
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGCTCAGATGAGGACTCT
59.66
CTGACTGAGGACCACAGAGC
59.75
180
PCR template sequence:
TCTGGATTCCCTGGGCTCAGATGAGGACTCTGGAAATGAGGATGTTTTTGATATGGAGTACACAGAAGCTGAAGCTGAGGAGCTGAAAAGAAATGCTGAGGAAATTCACCTTCAAATCCAAGAGCTCCGTGACATCATGCCTTGATTCAGACAGTGAGGATGAACTTAAACGCTCTGTGGTCCTCAGTCAGAGACTTTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-125b-5p(1), mmu-miR-149-5p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-22-3p(1), mmu-miR-670-5p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGAAATGCTGAGGAAATTCACCTTC
siRNA sets
AATTTCCTCAGCATTTCTT,GAATTTCCTCAGCATTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP37_742_ORF_1
1.1711
0.324901508
0.974435778
750
ORF sequence:
ATGCTGAGGAAATTCACCTTCAAATCCAAGAGCTCCGTGACATCATGCCTTGATTCAGACAGTGAGGATGAACTTAAACGCTCTGTGGTCCTCAGTCAGAGACTTTGTGATTTGCCAGGCAATGAACAGTACCAGGAAGATGTGGAAAAAGATTTGAAATTGTGCAGATTAGAGCCTGGGAAGGCAGAACTGGAGAACTCAGGATTTGACAGAATGAGTGAGGAAGAGGTGCTGGCAGCTGTGTTAGAGATAAGCAGGAGAGAAGCTTCGCCGGTACTTAGCCCTGAAGATGATGATAAGCCAACCAGCAGTCCGGACACCGGCTTTGCAGAAGATGATATTCCAGAAATGCCTGAAAATCCAGATGCTATGGAAATTGAGAAGTCCAAAACAATCACTGAGCCAGGTCCTGCTAGTTTTACTGAGATAACAAAAGACTGTGATGAGAATAAAGAAAACAAAACTCCAGAAGGCTCTCAGGGAGAGGTTGATTGGCTCCAGCAGTATGACGTAGACCGGGAAAGAGAAGAGCAGGAGCTGCAGCAAGCACTGGCTCAGAGCCTTCAAGAGCAAGAGGCTTGGGAACAGAAGGAAGATGACGACCTCAAAAGGGCTACAGAATTAAGTCTTCAAGAGTTTAACAACTCTTTTCTGGATTCCCTGGGCTCAGATGAGGACTCTGGAAATGAGGATGTTTTTGATATGGAGTACACAGAAGCTGAAGCTGAGGAGCTGAAAAGAAATGCTGAG
Peptide sequence:
MLRKFTFKSKSSVTSCLDSDSEDELKRSVVLSQRLCDLPGNEQYQEDVEKDLKLCRLEPGKAELENSGFDRMSEEEVLAAVLEISRREASPVLSPEDDDKPTSSPDTGFAEDDIPEMPENPDAMEIEKSKTITEPGPASFTEITKDCDENKENKTPEGSQGEVDWLQQYDVDREREEQELQQALAQSLQEQEAWEQKEDDDLKRATELSLQEFNNSFLDSLGSDEDSGNEDVFDMEYTEAEAEELKRNAE
IRESfinder result
IRESfinder score
0.431667393
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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