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mmu_circTrps1_929
Basic information of circular RNA
PanCircBase ID:
mmu_circTrps1_929
mm39_Chr. Position ID:
chr15|50709409|50710338|-
Gene name:
Trps1
Transcript:
ENSMUST00000165201.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
929
Exon/intron sizes in nt:
929
Flanking exon/introns:
chr15:50695354-50709409|chr15:50710338-50752999
Splice length:
929
Other database IDs:
circBase: mmu_circ_0000599, CIRCpedia: MMU_CIRCpedia_21959, circAtlas: mmu-Trps1_0003
circAtlas: hsa-TRPS1_0004, CIRCpedia: HSA_CIRCpedia_352731
Human Ortholog IDs:
Mature spliced Sequence:
ATATGGTCCGGAAAAAGAACCCCCCTCTGAGAAACGTTGCTAGTGAAGGCGAGGGTCAAACCCTGGAGCCAACAGCTACAGAGAGCAAGGTATCTGGGAAGAACAAAGAATTGTCTGCAGATCAGATGTCAGAAAATACAGATCAGAGTGATGTTGCAGAGTTGAACTCGAAGGAGGAACACAGCACGCATGGCCAAGAGCCATCTTCCAGCGGTAAGAAGGACTTGCAAATCTCAGGCCTGAGTGAGAAGGCTGGCTTCAATTATGAAAGCCCCAGTAAGGGAGGGAGCCTTGTCTCCTTCCCACATGATGAGGTAACAGACAGAAATATGTTGGCTTTCTCATCTCCAGCTGCTGGGGGAGTCTGCGAGCCCTTGAAGTCTCCTCAAAGAGCAGAGGCAGATGACCCTCAAGATATGGCCTGCACCCCATCAGGGGATTCATTGGAGACAAAGGAAGAGCATAAAATGTCACCAAAGGCCACTGAGGAAACAGGGCCAGTGCAGAGTGGTCAAGCCAATTGTCAAGGTTTGAGTCCAGTTTCCGTGGCCTCAAAAAACCCACAAGTGCCTTCAGATGGGGGTGTCAGACTGAGTAAACCCAAAGGTGACTTACTGGTGAATGACAACCCAGACCCGGCACCTCTGTCTCCAGAGCTTCAGGACTTTAAATGCAATATCTGTGGATACGGTTACTATGGCAATGACCCCACAGATCTGATTAAGCACTTCCGAAAGTATCACTTAGGACTGCATAATCGCACCAGGCAGGATGCTGAGCTGGACAGCAAAATCTTGGCCCTTCATAACATGGTGCAGTTCAGCCATTCCAAAGACTTCCAGAAGGTCAACCGTTCTGTGCTTTCTGGCGTGCTGCAGGATATCAGCTCTTCACGGCCTGCTTTACTAAACGGAACCTATGATGTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTCTGTGCTTTCTGGCGTG
60.04
TGCTCTCTGTAGCTGTTGGC
60.04
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGTCAACCGTTCTGTGCTT
59.82
TGCTCTCTGTAGCTGTTGGC
60.04
173
PCR template sequence:
CAAAGACTTCCAGAAGGTCAACCGTTCTGTGCTTTCTGGCGTGCTGCAGGATATCAGCTCTTCACGGCCTGCTTTACTAAACGGAACCTATGATGTACAGATATGGTCCGGAAAAAGAACCCCCCTCTGAGAAACGTTGCTAGTGAAGGCGAGGGTCAAACCCTGGAGCCAACAGCTACAGAGAGCAAGGTATCTGGGAA
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-298-5p(1), mmu-miR-149-5p(1), mmu-miR-676-3p(1), mmu-miR-382-3p(1), mmu-miR-127-5p(1), mmu-miR-224-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTATGATGTACAGATATGGTCCGGAA
siRNA sets
TTCCGGACCATATCTGTAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRPS1_929_ORF_1
0.9172
0.231500862
0.986233447
957
ORF sequence:
ATGGTCCGGAAAAAGAACCCCCCTCTGAGAAACGTTGCTAGTGAAGGCGAGGGTCAAACCCTGGAGCCAACAGCTACAGAGAGCAAGGTATCTGGGAAGAACAAAGAATTGTCTGCAGATCAGATGTCAGAAAATACAGATCAGAGTGATGTTGCAGAGTTGAACTCGAAGGAGGAACACAGCACGCATGGCCAAGAGCCATCTTCCAGCGGTAAGAAGGACTTGCAAATCTCAGGCCTGAGTGAGAAGGCTGGCTTCAATTATGAAAGCCCCAGTAAGGGAGGGAGCCTTGTCTCCTTCCCACATGATGAGGTAACAGACAGAAATATGTTGGCTTTCTCATCTCCAGCTGCTGGGGGAGTCTGCGAGCCCTTGAAGTCTCCTCAAAGAGCAGAGGCAGATGACCCTCAAGATATGGCCTGCACCCCATCAGGGGATTCATTGGAGACAAAGGAAGAGCATAAAATGTCACCAAAGGCCACTGAGGAAACAGGGCCAGTGCAGAGTGGTCAAGCCAATTGTCAAGGTTTGAGTCCAGTTTCCGTGGCCTCAAAAAACCCACAAGTGCCTTCAGATGGGGGTGTCAGACTGAGTAAACCCAAAGGTGACTTACTGGTGAATGACAACCCAGACCCGGCACCTCTGTCTCCAGAGCTTCAGGACTTTAAATGCAATATCTGTGGATACGGTTACTATGGCAATGACCCCACAGATCTGATTAAGCACTTCCGAAAGTATCACTTAGGACTGCATAATCGCACCAGGCAGGATGCTGAGCTGGACAGCAAAATCTTGGCCCTTCATAACATGGTGCAGTTCAGCCATTCCAAAGACTTCCAGAAGGTCAACCGTTCTGTGCTTTCTGGCGTGCTGCAGGATATCAGCTCTTCACGGCCTGCTTTACTAAACGGAACCTATGATGTACAGATATGGTCCGGAAAAAGAACCCCCCTCTGA
Peptide sequence:
MVRKKNPPLRNVASEGEGQTLEPTATESKVSGKNKELSADQMSENTDQSDVAELNSKEEHSTHGQEPSSSGKKDLQISGLSEKAGFNYESPSKGGSLVSFPHDEVTDRNMLAFSSPAAGGVCEPLKSPQRAEADDPQDMACTPSGDSLETKEEHKMSPKATEETGPVQSGQANCQGLSPVSVASKNPQVPSDGGVRLSKPKGDLLVNDNPDPAPLSPELQDFKCNICGYGYYGNDPTDLIKHFRKYHLGLHNRTRQDAELDSKILALHNMVQFSHSKDFQKVNRSVLSGVLQDISSSRPALLNGTYDVQIWSGKRTPL
IRESfinder result
IRESfinder score
0.375322823
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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