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mmu_circTrim37_390
Basic information of circular RNA
PanCircBase ID:
mmu_circTrim37_390
mm39_Chr. Position ID:
chr11|87054644|87068854|+
Gene name:
Trim37
Transcript:
ENSMUST00000041282.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
10,11,12,13
Exon/intron offsets:
0,2783,3621,14030
Genomic length:
14210
Exon/intron sizes in nt:
51,82,77,180
Flanking exon/introns:
chr11:87050771-87054644|chr11:87068854-87073246
Splice length:
390
Other database IDs:
CIRCpedia: MMU_CIRCpedia_32761, circAtlas: mmu-Trim37_0009
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_21600
Human Ortholog IDs:
Mature spliced Sequence:
TGAATTGGTACCATCCTATGATTCAGCTACTTTTGTTTTAGAGAACTTCAGCACTTTGCGGCAGAGAGCAGATCCTGTTTACAGTCCGCCTCTTCAAGTTTCAGGACTTTGTTGGAGGTTAAAAGTTTACCCAGATGGAAATGGAGTTGTACGTGGCTATTATTTATCTGTATTTTTGGAACTATCGGCTGGCTTGCCTGAAACTTCCAAGTATGAATATCGTGTAGAAATGGTTCACCAGTCGTGCAATGATCCTACAAAAAATATCATTCGAGAATTTGCATCTGACTTTGAAGTTGGAGAGTGCTGGGGCTACAATAGGTTTTTTCGTTTGGATTTACTTGCAAACGAAGGATACTTGAACCGACAAAATGATACAGTGATTTTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGTTGGAGAGTGCTGGGG
60.32
AACAGGATCTGCTCTCTGCC
59.46
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGTTGGAGAGTGCTGGG
59.6
AACAGGATCTGCTCTCTGCC
59.46
178
PCR template sequence:
TTGAAGTTGGAGAGTGCTGGGGCTACAATAGGTTTTTTCGTTTGGATTTACTTGCAAACGAAGGATACTTGAACCGACAAAATGATACAGTGATTTTAAGTGAATTGGTACCATCCTATGATTCAGCTACTTTTGTTTTAGAGAACTTCAGCACTTTGCGGCAGAGAGCAGATCCTGTTTACAGTCCGCCTCTTCAAGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-106b-5p(1), mmu-miR-30c-5p(1), mmu-miR-136-5p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGTGATTTTAAGTGAATTGGTACCA
siRNA sets
AATTCACTTAAAATCACTG, TACCAATTCACTTAAAATC, CAATTCACTTAAAATCACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRIM37_390_ORF_1
0.7334
-0.004026016
0.511948329
549
ORF sequence:
ATGGTTCACCAGTCGTGCAATGATCCTACAAAAAATATCATTCGAGAATTTGCATCTGACTTTGAAGTTGGAGAGTGCTGGGGCTACAATAGGTTTTTTCGTTTGGATTTACTTGCAAACGAAGGATACTTGAACCGACAAAATGATACAGTGATTTTAAGTGAATTGGTACCATCCTATGATTCAGCTACTTTTGTTTTAGAGAACTTCAGCACTTTGCGGCAGAGAGCAGATCCTGTTTACAGTCCGCCTCTTCAAGTTTCAGGACTTTGTTGGAGGTTAAAAGTTTACCCAGATGGAAATGGAGTTGTACGTGGCTATTATTTATCTGTATTTTTGGAACTATCGGCTGGCTTGCCTGAAACTTCCAAGTATGAATATCGTGTAGAAATGGTTCACCAGTCGTGCAATGATCCTACAAAAAATATCATTCGAGAATTTGCATCTGACTTTGAAGTTGGAGAGTGCTGGGGCTACAATAGGTTTTTTCGTTTGGATTTACTTGCAAACGAAGGATACTTGAACCGACAAAATGATACAGTGATTTTA
Peptide sequence:
MVHQSCNDPTKNIIREFASDFEVGECWGYNRFFRLDLLANEGYLNRQNDTVILSELVPSYDSATFVLENFSTLRQRADPVYSPPLQVSGLCWRLKVYPDGNGVVRGYYLSVFLELSAGLPETSKYEYRVEMVHQSCNDPTKNIIREFASDFEVGECWGYNRFFRLDLLANEGYLNRQNDTVIL
IRESfinder result
IRESfinder score
0.863134908
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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