top of page
mmu_circAsph_645
Basic information of circular RNA
PanCircBase ID:
mmu_circAsph_645
mm39_Chr. Position ID:
chr4|9583811|9635969|-
Gene name:
Asph
Transcript:
ENSMUST00000078139.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
13,12,11,10,9,8,7,6,5,4,3
Exon/intron offsets:
0,10851,11565,14457,14921,17495,18657,20704,23985,27031,52089
Genomic length:
52158
Exon/intron sizes in nt:
45,36,39,33,48,57,33,114,75,96,69
Flanking exon/introns:
chr4:9542310-9583811|chr4:9635969-9639197
Splice length:
645
Other database IDs:
circAtlas: mmu-Asph_0003
Human Ortholog IDs:
Mature spliced Sequence:
GAAAACTAGGAGTCTATGATGCGGATGGCGATGGAGACTTTGATGTGGATGATGCCAAAGTTTTATTAGGCCTTAAAGAAAGATCTCCTTCTGAGAGGACATTTCCACCGGAGGAGGAGGCAGAGACTCACGCTGAGCTGGAGGAGCAGGCCCCTGAGGGGGCAGACATCCAGAATGTTGAAGATGAAGTAAAGGAACAAATTCAGTCCCTTCTTCAGGAATCAGTACACACAGACCATGACCTTGAAGCAGATGGGCTGGCAGGAGAACCACAGCCGGAGGTTGAGGACTTCCTCACAGTGACCGACAGTGATGACAGATTTGAGGACCTGGAACCCGGGACAGTTCATGAAGAAATCGAGGATACTTACCATGTGGAAGACACAGCATCGCAGAACCATCCAAATGACATGGAAGAGATGACGAATGAGCAGGAAAATTCAGATCCCAGTGAAGCAGTGACAGATGCAGGTGTGCTGCTGCCCCATGCAGAGGAAGTAAGACACCAAGACTATGATGAACCAGTATATGAACCCTCAGAGCATGAAGGGGTCGCGATTTCAGATAACACCATAGATGATTCCAGCATAATCTCAGAAGAAATAAATGTCGCCTCTGTTGAAGAACAGCAAGACACACCACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGGGGTCGCGATTTCAGA
60.11
AAAGTCTCCATCGCCATCCG
60.18
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGGGTCGCGATTTCAGAT
59.46
AAAGTCTCCATCGCCATCCG
60.18
140
PCR template sequence:
GAAGGGGTCGCGATTTCAGATAACACCATAGATGATTCCAGCATAATCTCAGAAGAAATAAATGTCGCCTCTGTTGAAGAACAGCAAGACACACCACCAGGAAAACTAGGAGTCTATGATGCGGATGGCGATGGAGACTTTGATGTGGATGATGCCAAAGTTTTATTAGGCCTTAAAGAAAGATCTCCTTCTGAGAGGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-15b-5p(1), mmu-miR-431-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GACACACCACCAGGAAAACTAGGAGT
siRNA sets
TAGTTTTCCTGGTGGTGTG,CTCCTAGTTTTCCTGGTGG,ACTCCTAGTTTTCCTGGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCASPH_645_ORF_1
1.2103
0.337525241
0.99099222
879
ORF sequence:
ATGGAAGAGATGACGAATGAGCAGGAAAATTCAGATCCCAGTGAAGCAGTGACAGATGCAGGTGTGCTGCTGCCCCATGCAGAGGAAGTAAGACACCAAGACTATGATGAACCAGTATATGAACCCTCAGAGCATGAAGGGGTCGCGATTTCAGATAACACCATAGATGATTCCAGCATAATCTCAGAAGAAATAAATGTCGCCTCTGTTGAAGAACAGCAAGACACACCACCAGGAAAACTAGGAGTCTATGATGCGGATGGCGATGGAGACTTTGATGTGGATGATGCCAAAGTTTTATTAGGCCTTAAAGAAAGATCTCCTTCTGAGAGGACATTTCCACCGGAGGAGGAGGCAGAGACTCACGCTGAGCTGGAGGAGCAGGCCCCTGAGGGGGCAGACATCCAGAATGTTGAAGATGAAGTAAAGGAACAAATTCAGTCCCTTCTTCAGGAATCAGTACACACAGACCATGACCTTGAAGCAGATGGGCTGGCAGGAGAACCACAGCCGGAGGTTGAGGACTTCCTCACAGTGACCGACAGTGATGACAGATTTGAGGACCTGGAACCCGGGACAGTTCATGAAGAAATCGAGGATACTTACCATGTGGAAGACACAGCATCGCAGAACCATCCAAATGACATGGAAGAGATGACGAATGAGCAGGAAAATTCAGATCCCAGTGAAGCAGTGACAGATGCAGGTGTGCTGCTGCCCCATGCAGAGGAAGTAAGACACCAAGACTATGATGAACCAGTATATGAACCCTCAGAGCATGAAGGGGTCGCGATTTCAGATAACACCATAGATGATTCCAGCATAATCTCAGAAGAAATAAATGTCGCCTCTGTTGAAGAACAGCAAGACACACCACCA
Peptide sequence:
MEEMTNEQENSDPSEAVTDAGVLLPHAEEVRHQDYDEPVYEPSEHEGVAISDNTIDDSSIISEEINVASVEEQQDTPPGKLGVYDADGDGDFDVDDAKVLLGLKERSPSERTFPPEEEAETHAELEEQAPEGADIQNVEDEVKEQIQSLLQESVHTDHDLEADGLAGEPQPEVEDFLTVTDSDDRFEDLEPGTVHEEIEDTYHVEDTASQNHPNDMEEMTNEQENSDPSEAVTDAGVLLPHAEEVRHQDYDEPVYEPSEHEGVAISDNTIDDSSIISEEINVASVEEQQDTPP
IRESfinder result
IRESfinder score
0.304128431
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page