top of page
mmu_circAsph_750
Basic information of circular RNA
PanCircBase ID:
mmu_circAsph_750
mm39_Chr. Position ID:
chr4|9594662|9639347|-
Gene name:
Asph
Transcript:
ENSMUST00000078139.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,714,3606,4070,6644,7806,9853,13134,16180,41238,44535
Genomic length:
44685
Exon/intron sizes in nt:
36,39,33,48,57,33,114,75,96,69,150
Flanking exon/introns:
chr4:9583856-9594662|chr4:9639347-9668780
Splice length:
750
Other database IDs:
circAtlas: mmu-Asph_0029
Human Ortholog IDs:
Mature spliced Sequence:
AGGCAAAGCACGGAGGACACAAGAATGGGAGAAGAGGAGGGATTTCAGGAGGGTCCTTTTTCACATGGTTCATGGTCATTGCATTGCTCGGCGTCTGGACATCTGTGGCTGTCGTGTGGTTTGACTTGGTCGATTATGAAGAAGTTCTAGGAAAACTAGGAGTCTATGATGCGGATGGCGATGGAGACTTTGATGTGGATGATGCCAAAGTTTTATTAGGCCTTAAAGAAAGATCTCCTTCTGAGAGGACATTTCCACCGGAGGAGGAGGCAGAGACTCACGCTGAGCTGGAGGAGCAGGCCCCTGAGGGGGCAGACATCCAGAATGTTGAAGATGAAGTAAAGGAACAAATTCAGTCCCTTCTTCAGGAATCAGTACACACAGACCATGACCTTGAAGCAGATGGGCTGGCAGGAGAACCACAGCCGGAGGTTGAGGACTTCCTCACAGTGACCGACAGTGATGACAGATTTGAGGACCTGGAACCCGGGACAGTTCATGAAGAAATCGAGGATACTTACCATGTGGAAGACACAGCATCGCAGAACCATCCAAATGACATGGAAGAGATGACGAATGAGCAGGAAAATTCAGATCCCAGTGAAGCAGTGACAGATGCAGGTGTGCTGCTGCCCCATGCAGAGGAAGTAAGACACCAAGACTATGATGAACCAGTATATGAACCCTCAGAGCATGAAGGGGTCGCGATTTCAGATAACACCATAGATGATTCCAGCATAATCTCAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGGGGTCGCGATTTCAGA
60.11
CCGAGCAATGCAATGACCAT
59.26
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAGAGCATGAAGGGGTCG
60.18
CCGAGCAATGCAATGACCAT
59.26
156
PCR template sequence:
AGACACCAAGACTATGATGAACCAGTATATGAACCCTCAGAGCATGAAGGGGTCGCGATTTCAGATAACACCATAGATGATTCCAGCATAATCTCAGAAGAGGCAAAGCACGGAGGACACAAGAATGGGAGAAGAGGAGGGATTTCAGGAGGGTCCTTTTTCACATGGTTCATGGTCATTGCATTGCTCGGCGTCTGGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-15b-5p(1), mmu-miR-384-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
ATAATCTCAGAAGAGGCAAAGCACGG
siRNA sets
GTGCTTTGCCTCTTCTGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCASPH_750_ORF_1
1.1913
0.318430617
0.999805342
1428
ORF sequence:
ATGGTCATTGCATTGCTCGGCGTCTGGACATCTGTGGCTGTCGTGTGGTTTGACTTGGTCGATTATGAAGAAGTTCTAGGAAAACTAGGAGTCTATGATGCGGATGGCGATGGAGACTTTGATGTGGATGATGCCAAAGTTTTATTAGGCCTTAAAGAAAGATCTCCTTCTGAGAGGACATTTCCACCGGAGGAGGAGGCAGAGACTCACGCTGAGCTGGAGGAGCAGGCCCCTGAGGGGGCAGACATCCAGAATGTTGAAGATGAAGTAAAGGAACAAATTCAGTCCCTTCTTCAGGAATCAGTACACACAGACCATGACCTTGAAGCAGATGGGCTGGCAGGAGAACCACAGCCGGAGGTTGAGGACTTCCTCACAGTGACCGACAGTGATGACAGATTTGAGGACCTGGAACCCGGGACAGTTCATGAAGAAATCGAGGATACTTACCATGTGGAAGACACAGCATCGCAGAACCATCCAAATGACATGGAAGAGATGACGAATGAGCAGGAAAATTCAGATCCCAGTGAAGCAGTGACAGATGCAGGTGTGCTGCTGCCCCATGCAGAGGAAGTAAGACACCAAGACTATGATGAACCAGTATATGAACCCTCAGAGCATGAAGGGGTCGCGATTTCAGATAACACCATAGATGATTCCAGCATAATCTCAGAAGAGGCAAAGCACGGAGGACACAAGAATGGGAGAAGAGGAGGGATTTCAGGAGGGTCCTTTTTCACATGGTTCATGGTCATTGCATTGCTCGGCGTCTGGACATCTGTGGCTGTCGTGTGGTTTGACTTGGTCGATTATGAAGAAGTTCTAGGAAAACTAGGAGTCTATGATGCGGATGGCGATGGAGACTTTGATGTGGATGATGCCAAAGTTTTATTAGGCCTTAAAGAAAGATCTCCTTCTGAGAGGACATTTCCACCGGAGGAGGAGGCAGAGACTCACGCTGAGCTGGAGGAGCAGGCCCCTGAGGGGGCAGACATCCAGAATGTTGAAGATGAAGTAAAGGAACAAATTCAGTCCCTTCTTCAGGAATCAGTACACACAGACCATGACCTTGAAGCAGATGGGCTGGCAGGAGAACCACAGCCGGAGGTTGAGGACTTCCTCACAGTGACCGACAGTGATGACAGATTTGAGGACCTGGAACCCGGGACAGTTCATGAAGAAATCGAGGATACTTACCATGTGGAAGACACAGCATCGCAGAACCATCCAAATGACATGGAAGAGATGACGAATGAGCAGGAAAATTCAGATCCCAGTGAAGCAGTGACAGATGCAGGTGTGCTGCTGCCCCATGCAGAGGAAGTAAGACACCAAGACTATGATGAACCAGTATATGAACCCTCAGAGCATGAAGGGGTCGCGATTTCAGATAACACCATAGATGATTCCAGCATAATCTCAGAA
Peptide sequence:
MVIALLGVWTSVAVVWFDLVDYEEVLGKLGVYDADGDGDFDVDDAKVLLGLKERSPSERTFPPEEEAETHAELEEQAPEGADIQNVEDEVKEQIQSLLQESVHTDHDLEADGLAGEPQPEVEDFLTVTDSDDRFEDLEPGTVHEEIEDTYHVEDTASQNHPNDMEEMTNEQENSDPSEAVTDAGVLLPHAEEVRHQDYDEPVYEPSEHEGVAISDNTIDDSSIISEEAKHGGHKNGRRGGISGGSFFTWFMVIALLGVWTSVAVVWFDLVDYEEVLGKLGVYDADGDGDFDVDDAKVLLGLKERSPSERTFPPEEEAETHAELEEQAPEGADIQNVEDEVKEQIQSLLQESVHTDHDLEADGLAGEPQPEVEDFLTVTDSDDRFEDLEPGTVHEEIEDTYHVEDTASQNHPNDMEEMTNEQENSDPSEAVTDAGVLLPHAEEVRHQDYDEPVYEPSEHEGVAISDNTIDDSSIISE
IRESfinder result
IRESfinder score
0.371091913
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
RPF, cORF
mmu_circAsph_001
Evidence
Peptide sequence:
MVIALLGVWTSVAVVWFDLVDYEEVLAKAKDFRYNLSEVLQDIQNVEDEVKEQIQSLLQESVHTDHDLEADGLAGEPQPEVEDFLTVTDSDDRFEDLEPGTVHEEIEDTYHVEDTASQNHPNDMEEMTNEQENSVYEPSEHEGVAISDNTIDDSSIISEEAKHGGHKNGRRGGISGGSFFTWFMVIALLGVWTSVAVVWFDLVDYEEVLAKAKDFRYNLSEVLQDIQNVEDEVKEQIQSLLQESVHTDHDLEADGLAGEPQPEVEDFLTVTDSDDRFEDLEPGTVHEEIEDTYHVEDTASQNHPNDMEEMTNEQENSVYEPSEHEGVAISDNTIDDSSIISEEAKHGGHKNGRRGGISGGSFFTWF
bottom of page