top of page
mmu_circTrappc8_816
Basic information of circular RNA
PanCircBase ID:
mmu_circTrappc8_816
mm39_Chr. Position ID:
chr18|20964506|20970246|-
Gene name:
Trappc8
Transcript:
ENSMUST00000225661.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
24,23,22,21,20
Exon/intron offsets:
0,160,1500,3496,5297
Genomic length:
5740
Exon/intron sizes in nt:
5,96,99,71,48,443
Flanking exon/introns:
chr18:20961705-20964506|chr18:20970246-20974584
Splice length:
816
Other database IDs:
circAtlas: mmu-Trappc8_0007
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_152709
Human Ortholog IDs:
Mature spliced Sequence:
GTGTTCTTTATACATTTTCCTACAGGGCTCCTCTGTGGAGAAATCCGAAAAGCATATGTAGAGTTTGTCAATGTCAGCAAATGTCCTCTGACTGGACTGAAAGTTGTGTCTAAACGTCCAGAGTTCTTCACTTTTGGTGGCAATACCGCTGCTCTAACACCACTGAGCCCCTCCACATCTGAGAACTGCAGTGCCTATAAGACGGTTGTAACAGCTTCCCCCTCCTTGGGAACAGCACTTGTGTCAACAGCATCATCTATGGACTTTGGAACTGGCACCGGACAGCAGCTGGAGGCCATTCCTGTCCCCCTTCCTGACTCCGTGCTGCTCCCCGGAGCTTCCATCCAGCTGCCAATGTGGCTTCGTGGGCCAGACGAAGAGGGTGTCCATGAAATTAACTTTTTATTTTACTATGAAAGTGTTAAAAAGCAGCCTAAAAAACGACACAGAATATTAAGACACACTGCAGTTATTTGTACTAGCCGGTCTTTGAATGTGCGAGCGACTGTCTGCAGAAGTAATTCACTTGAAGATGAAGAAGGCAGGGGCGGCAATATGCTAGTCTTCGTGGATGTAGAAAATACTAATACTAGTGAAGCGGGGGTTAAGGAGTTCCACATGGTGCAGGTGTCAAGCAGTAGCAAGCACTGGCAGCTACACAAGTCCGTGAATATCTCCGAAAACAAAGATGCCAAGCTTGCCAGTAGGGAGAAGGGAAAGTTTTGCTTCAAGGCAGTAAGATGTAAACAAAAAGAAGGTGGTATACAGTCCTCAGAAAAATACACCTTTGCAGATATCATCTTTGGAAATGAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTTCAAGGCAGTAAGATGT
57.58
TCGGATTTCTCCACAGAGGA
57.77
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTTTTGCTTCAAGGCAGT
56.35
TCGGATTTCTCCACAGAGGA
57.77
147
PCR template sequence:
AAAGTTTTGCTTCAAGGCAGTAAGATGTAAACAAAAAGAAGGTGGTATACAGTCCTCAGAAAAATACACCTTTGCAGATATCATCTTTGGAAATGAACAGGTGTTCTTTATACATTTTCCTACAGGGCTCCTCTGTGGAGAAATCCGAAAAGCATATGTAGAGTTTGTCAATGTCAGCAAATGTCCTCTGACTGGACTGA
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-16-5p(1), mmu-miR-93-5p(1), mmu-miR-181a-5p(1), mmu-miR-221-3p(1), mmu-miR-7a-5p(1), mmu-miR-222-3p(1), mmu-miR-22-3p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGAAATGAACAGGTGTTCTTTATAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRAPPC8_816_ORF_1
0.852
0.11322422
0.998747439
1374
ORF sequence:
ATGGACTTTGGAACTGGCACCGGACAGCAGCTGGAGGCCATTCCTGTCCCCCTTCCTGACTCCGTGCTGCTCCCCGGAGCTTCCATCCAGCTGCCAATGTGGCTTCGTGGGCCAGACGAAGAGGGTGTCCATGAAATTAACTTTTTATTTTACTATGAAAGTGTTAAAAAGCAGCCTAAAAAACGACACAGAATATTAAGACACACTGCAGTTATTTGTACTAGCCGGTCTTTGAATGTGCGAGCGACTGTCTGCAGAAGTAATTCACTTGAAGATGAAGAAGGCAGGGGCGGCAATATGCTAGTCTTCGTGGATGTAGAAAATACTAATACTAGTGAAGCGGGGGTTAAGGAGTTCCACATGGTGCAGGTGTCAAGCAGTAGCAAGCACTGGCAGCTACACAAGTCCGTGAATATCTCCGAAAACAAAGATGCCAAGCTTGCCAGTAGGGAGAAGGGAAAGTTTTGCTTCAAGGCAGTAAGATGTAAACAAAAAGAAGGTGGTATACAGTCCTCAGAAAAATACACCTTTGCAGATATCATCTTTGGAAATGAACAGGTGTTCTTTATACATTTTCCTACAGGGCTCCTCTGTGGAGAAATCCGAAAAGCATATGTAGAGTTTGTCAATGTCAGCAAATGTCCTCTGACTGGACTGAAAGTTGTGTCTAAACGTCCAGAGTTCTTCACTTTTGGTGGCAATACCGCTGCTCTAACACCACTGAGCCCCTCCACATCTGAGAACTGCAGTGCCTATAAGACGGTTGTAACAGCTTCCCCCTCCTTGGGAACAGCACTTGTGTCAACAGCATCATCTATGGACTTTGGAACTGGCACCGGACAGCAGCTGGAGGCCATTCCTGTCCCCCTTCCTGACTCCGTGCTGCTCCCCGGAGCTTCCATCCAGCTGCCAATGTGGCTTCGTGGGCCAGACGAAGAGGGTGTCCATGAAATTAACTTTTTATTTTACTATGAAAGTGTTAAAAAGCAGCCTAAAAAACGACACAGAATATTAAGACACACTGCAGTTATTTGTACTAGCCGGTCTTTGAATGTGCGAGCGACTGTCTGCAGAAGTAATTCACTTGAAGATGAAGAAGGCAGGGGCGGCAATATGCTAGTCTTCGTGGATGTAGAAAATACTAATACTAGTGAAGCGGGGGTTAAGGAGTTCCACATGGTGCAGGTGTCAAGCAGTAGCAAGCACTGGCAGCTACACAAGTCCGTGAATATCTCCGAAAACAAAGATGCCAAGCTTGCCAGTAGGGAGAAGGGAAAGTTTTGCTTCAAGGCAGTAAGATGTAAACAAAAAGAAGGTGGTATACAGTCCTCAGAAAAATACACCTTTGCAGATATCATCTTTGGAAATGAACAG
Peptide sequence:
MDFGTGTGQQLEAIPVPLPDSVLLPGASIQLPMWLRGPDEEGVHEINFLFYYESVKKQPKKRHRILRHTAVICTSRSLNVRATVCRSNSLEDEEGRGGNMLVFVDVENTNTSEAGVKEFHMVQVSSSSKHWQLHKSVNISENKDAKLASREKGKFCFKAVRCKQKEGGIQSSEKYTFADIIFGNEQVFFIHFPTGLLCGEIRKAYVEFVNVSKCPLTGLKVVSKRPEFFTFGGNTAALTPLSPSTSENCSAYKTVVTASPSLGTALVSTASSMDFGTGTGQQLEAIPVPLPDSVLLPGASIQLPMWLRGPDEEGVHEINFLFYYESVKKQPKKRHRILRHTAVICTSRSLNVRATVCRSNSLEDEEGRGGNMLVFVDVENTNTSEAGVKEFHMVQVSSSSKHWQLHKSVNISENKDAKLASREKGKFCFKAVRCKQKEGGIQSSEKYTFADIIFGNEQ
IRESfinder result
IRESfinder score
0.592102076
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page