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mmu_circArid4b_711
Basic information of circular RNA
PanCircBase ID:
mmu_circArid4b_711
mm39_Chr. Position ID:
chr13|14310752|14334857|+
Gene name:
Arid4b
Transcript:
ENSMUST00000129488.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
7,8,9,10,11,12,13
Exon/intron offsets:
0,6812,9119,17248,18813,21606,24010
Genomic length:
24105
Exon/intron sizes in nt:
92,139,80,77,155,73,95
Flanking exon/introns:
chr13:14307100-14310752|chr13:14334857-14335882
Splice length:
711
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ACACTAGACCAGCTCCCACTCACCAATCCTGAGCATTTTGGCACTCCAGTCATAGGAAAGAAAACAAATAGAGGAAGAAGATCTAACCATATACCAGAGGAGGAGTCTTCCTCCTCATCCAGTGATGACGATGAGGAGGAGAGGAAACAGACTGATGAGCTACTAGGCAAAGTTGTTTGTGTAGATTATGTTAGCTTGGAGAAAAAGAAAGCGATGTGGTTTCCTGCACTGGTGGTTTGTCCTGACTGTAGTGATGAGATTGCTGTGAAAAAAGACAATATTCTTGTTCGGTCTTTCAAAGATGGCAAATTTACTTCAGTTCCAAGAAAAGATGTCCATGAAATTACTAGTGACACTGTACCGAAGCCTGATGCTGTATTAAAACAAGCCTTTGATCAGGCACTTGAGTTTCACAAAAGTAGAGCTATTCCTGCTAATTGGAAGACTGAATTGAAAGAAGACAGCTCCAGTAGTGAAGCTGAGGAGGAGGAGGAGGAGGAAGATGATGAAAAAGAGAAAGAAGATAACAGCAGCGAAGAAGAGGAAGAAATAGAACCATTTCCAGAGGAAAGGGAGAACTTTCTTCAGCAGCTGTATAAGTTCATGGAGGATAGAGGTACACCTATTAACAAACGGCCTGTGCTTGGGTATCGAAATTTGAATCTTTTTAAGTTATTCAGACTTGTGCACAAACTTGGAGGGTTTGATAAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAACAAACGGCCTGTGCTTG
59.33
TCCTATGACTGGAGTGCCAA
58.05
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAACAAACGGCCTGTGCTTG
59.33
TTCCTATGACTGGAGTGCCA
58.05
143
PCR template sequence:
TAGAGGTACACCTATTAACAAACGGCCTGTGCTTGGGTATCGAAATTTGAATCTTTTTAAGTTATTCAGACTTGTGCACAAACTTGGAGGGTTTGATAATACACTAGACCAGCTCCCACTCACCAATCCTGAGCATTTTGGCACTCCAGTCATAGGAAAGAAAACAAATAGAGGAAGAAGATCTAACCATATACCAGAGG
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-7b-5p(1), mmu-miR-152-3p(1), mmu-miR-7a-5p(1), mmu-miR-139-5p(1), mmu-miR-705(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGGTTTGATAATACACTAGACCAGC
siRNA sets
TAGTGTATTATCAAACCCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARID4B_711_ORF_1
1.0923
0.171751048
0.997937363
1209
ORF sequence:
ATGTGGTTTCCTGCACTGGTGGTTTGTCCTGACTGTAGTGATGAGATTGCTGTGAAAAAAGACAATATTCTTGTTCGGTCTTTCAAAGATGGCAAATTTACTTCAGTTCCAAGAAAAGATGTCCATGAAATTACTAGTGACACTGTACCGAAGCCTGATGCTGTATTAAAACAAGCCTTTGATCAGGCACTTGAGTTTCACAAAAGTAGAGCTATTCCTGCTAATTGGAAGACTGAATTGAAAGAAGACAGCTCCAGTAGTGAAGCTGAGGAGGAGGAGGAGGAGGAAGATGATGAAAAAGAGAAAGAAGATAACAGCAGCGAAGAAGAGGAAGAAATAGAACCATTTCCAGAGGAAAGGGAGAACTTTCTTCAGCAGCTGTATAAGTTCATGGAGGATAGAGGTACACCTATTAACAAACGGCCTGTGCTTGGGTATCGAAATTTGAATCTTTTTAAGTTATTCAGACTTGTGCACAAACTTGGAGGGTTTGATAATACACTAGACCAGCTCCCACTCACCAATCCTGAGCATTTTGGCACTCCAGTCATAGGAAAGAAAACAAATAGAGGAAGAAGATCTAACCATATACCAGAGGAGGAGTCTTCCTCCTCATCCAGTGATGACGATGAGGAGGAGAGGAAACAGACTGATGAGCTACTAGGCAAAGTTGTTTGTGTAGATTATGTTAGCTTGGAGAAAAAGAAAGCGATGTGGTTTCCTGCACTGGTGGTTTGTCCTGACTGTAGTGATGAGATTGCTGTGAAAAAAGACAATATTCTTGTTCGGTCTTTCAAAGATGGCAAATTTACTTCAGTTCCAAGAAAAGATGTCCATGAAATTACTAGTGACACTGTACCGAAGCCTGATGCTGTATTAAAACAAGCCTTTGATCAGGCACTTGAGTTTCACAAAAGTAGAGCTATTCCTGCTAATTGGAAGACTGAATTGAAAGAAGACAGCTCCAGTAGTGAAGCTGAGGAGGAGGAGGAGGAGGAAGATGATGAAAAAGAGAAAGAAGATAACAGCAGCGAAGAAGAGGAAGAAATAGAACCATTTCCAGAGGAAAGGGAGAACTTTCTTCAGCAGCTGTATAAGTTCATGGAGGATAGAGGTACACCTATTAACAAACGGCCTGTGCTTGGGTATCGAAATTTGAATCTTTTTAAGTTATTCAGACTTGTGCACAAACTTGGAGGGTTTGATAAT
Peptide sequence:
MWFPALVVCPDCSDEIAVKKDNILVRSFKDGKFTSVPRKDVHEITSDTVPKPDAVLKQAFDQALEFHKSRAIPANWKTELKEDSSSSEAEEEEEEEDDEKEKEDNSSEEEEEIEPFPEERENFLQQLYKFMEDRGTPINKRPVLGYRNLNLFKLFRLVHKLGGFDNTLDQLPLTNPEHFGTPVIGKKTNRGRRSNHIPEEESSSSSSDDDEEERKQTDELLGKVVCVDYVSLEKKKAMWFPALVVCPDCSDEIAVKKDNILVRSFKDGKFTSVPRKDVHEITSDTVPKPDAVLKQAFDQALEFHKSRAIPANWKTELKEDSSSSEAEEEEEEEDDEKEKEDNSSEEEEEIEPFPEERENFLQQLYKFMEDRGTPINKRPVLGYRNLNLFKLFRLVHKLGGFDN
IRESfinder result
IRESfinder score
0.592771281
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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