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mmu_circUsp8_1355
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp8_1355
mm39_Chr. Position ID:
chr2|126575879|126594402|+
Gene name:
Usp8
Transcript:
ENSMUST00000138859.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
7,8,9,10,11,12,13
Exon/intron offsets:
0,2389,8386,13536,14226,17020,18312
Genomic length:
18523
Exon/intron sizes in nt:
1,45,10,63,36,81,26,32,00,000
Flanking exon/introns:
chr2:126574023-126575879|chr2:126594402-126596768
Splice length:
1355
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GAGCCATCACAGCAAAGGAACTATATACGATGATGATGGATAAAAACACAAGCTTAATTATAATGGATGCTCGAAAAATACAGGATTATCAGCATTCCTGTATCTTGGATTCTCTCAGTGTTCCTGAAGAAGCTATCAGTCCAGGAGTCACTGCTAGTTGGATTGAAGCAAACCTCTCAGATGATTCTAAAGACACATGGAAAAAGAGGGGGAGTGTGGACTATGTGGTCCTTCTCGACTGGTTTAGTTCACAGAAGGAACAGAAAGAGAAGCTGAGAAGGGAGGAACAAGAGCGCAAAGCTGGAAAGACACAGGATGCAGATGAACGTGACTCCACTGAGAATCAGCACAAAGCAAAGGATGGACAAGAGAAAAAAGACAGCAAACAGACCAAGACGGAAGACAGAGAGCTTTCAGCAGACGGGGCCCAGGAAGCCACAGGAACACAAAGACAAAGTAAGAGTGAGCATGAAGCTTCTGATGCTAAGGTACCTGTGGAAGGTAAAAGGTGTCCCACGTCAGAGGCGCAGAAGAGGCCAGCAGATGTGTCCCCTGCATCCGTGTCAGGAGAGCTGAATGCAGGCAAGGCTCAGCGAGAACCTTTGACGAGAGCACGAAGTGAAGAAATGGGGAGAATTGTGCCGGGACTGCCTTTGGGCTGGGCCAAGTTTCTTGATCCAATCACCGGGACCTTTCGTTACTACCATTCCCCCACAAACACAGTTCATATGTATCCACCTGAAATGGCTCCTTCGTCTGCACCTCCTTCCACCCCGCCCACTCACAAAGTCAAGCCCCAGGTCCCTGCCGAGCGGGACAGGGAGCCATCGAAACTGAAGCGCTCCTACTCCTCACCAGATATCACTCAGGCCCTGCAGGAGGAGGAGAAGAGGAGGCCGGCAGTGACCCCGATGGTCAACCGGGAAAACAAGCCACCATGTTACCCTAAAGCTGAGATTTCGAGGCTTTCTGCTTCTCAGATTCGGAACCTCAATCCTGTATTTGGAGGATCAGGACCAGCTCTTACTGGACTTCGTAATTTGGGAAATACTTGTTACATGAACTCAATCTTGCAGTGCCTGTGTAATGCTCCACATCTGGCTGATTATTTCAACCGAAACTGCTACCAGGATGATATCAACAGGTCAAATTTGTTGGGGCATAAAGGTGAAGTGGCAGAAGAATTTGGTATAATCATGAAAGCACTGTGGACAGGACAGTATAGATACATCAGTCCAAAGGACTTTAAAGTCACCATTGGTAAGATTAATGACCAGTTTGCAGGCTCCAGCCAACAGGATTCACAAGAGCTGCTTCTGTTCCTCATGGATGGCCTGCATGAGGATCTGAATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCCAGCCAACAGGATTCA
60.32
TCCTGTATTTTTCGAGCATCCA
57.79
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGACCAGTTTGCAGGCTCC
60.61
TCCTGTATTTTTCGAGCATCCA
57.79
171
PCR template sequence:
CATTGGTAAGATTAATGACCAGTTTGCAGGCTCCAGCCAACAGGATTCACAAGAGCTGCTTCTGTTCCTCATGGATGGCCTGCATGAGGATCTGAATAAGGAGCCATCACAGCAAAGGAACTATATACGATGATGATGGATAAAAACACAAGCTTAATTATAATGGATGCTCGAAAAATACAGGATTATCAGCATTCCTG
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-216a-5p(1), mmu-miR-149-5p(1), mmu-miR-411-3p(1), mmu-miR-1198-5p(1), mmu-miR-207(1), mmu-miR-669d-5p(1), mmu-miR-3065-5p(1), mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGATCTGAATAAGGAGCCATCACAGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP8_1355_ORF_1
1.0205
0.220666326
0.99932527
1359
ORF sequence:
ATGATGATGGATAAAAACACAAGCTTAATTATAATGGATGCTCGAAAAATACAGGATTATCAGCATTCCTGTATCTTGGATTCTCTCAGTGTTCCTGAAGAAGCTATCAGTCCAGGAGTCACTGCTAGTTGGATTGAAGCAAACCTCTCAGATGATTCTAAAGACACATGGAAAAAGAGGGGGAGTGTGGACTATGTGGTCCTTCTCGACTGGTTTAGTTCACAGAAGGAACAGAAAGAGAAGCTGAGAAGGGAGGAACAAGAGCGCAAAGCTGGAAAGACACAGGATGCAGATGAACGTGACTCCACTGAGAATCAGCACAAAGCAAAGGATGGACAAGAGAAAAAAGACAGCAAACAGACCAAGACGGAAGACAGAGAGCTTTCAGCAGACGGGGCCCAGGAAGCCACAGGAACACAAAGACAAAGTAAGAGTGAGCATGAAGCTTCTGATGCTAAGGTACCTGTGGAAGGTAAAAGGTGTCCCACGTCAGAGGCGCAGAAGAGGCCAGCAGATGTGTCCCCTGCATCCGTGTCAGGAGAGCTGAATGCAGGCAAGGCTCAGCGAGAACCTTTGACGAGAGCACGAAGTGAAGAAATGGGGAGAATTGTGCCGGGACTGCCTTTGGGCTGGGCCAAGTTTCTTGATCCAATCACCGGGACCTTTCGTTACTACCATTCCCCCACAAACACAGTTCATATGTATCCACCTGAAATGGCTCCTTCGTCTGCACCTCCTTCCACCCCGCCCACTCACAAAGTCAAGCCCCAGGTCCCTGCCGAGCGGGACAGGGAGCCATCGAAACTGAAGCGCTCCTACTCCTCACCAGATATCACTCAGGCCCTGCAGGAGGAGGAGAAGAGGAGGCCGGCAGTGACCCCGATGGTCAACCGGGAAAACAAGCCACCATGTTACCCTAAAGCTGAGATTTCGAGGCTTTCTGCTTCTCAGATTCGGAACCTCAATCCTGTATTTGGAGGATCAGGACCAGCTCTTACTGGACTTCGTAATTTGGGAAATACTTGTTACATGAACTCAATCTTGCAGTGCCTGTGTAATGCTCCACATCTGGCTGATTATTTCAACCGAAACTGCTACCAGGATGATATCAACAGGTCAAATTTGTTGGGGCATAAAGGTGAAGTGGCAGAAGAATTTGGTATAATCATGAAAGCACTGTGGACAGGACAGTATAGATACATCAGTCCAAAGGACTTTAAAGTCACCATTGGTAAGATTAATGACCAGTTTGCAGGCTCCAGCCAACAGGATTCACAAGAGCTGCTTCTGTTCCTCATGGATGGCCTGCATGAGGATCTGAATAAGGAGCCATCACAGCAAAGGAACTATATACGATGA
Peptide sequence:
MMMDKNTSLIIMDARKIQDYQHSCILDSLSVPEEAISPGVTASWIEANLSDDSKDTWKKRGSVDYVVLLDWFSSQKEQKEKLRREEQERKAGKTQDADERDSTENQHKAKDGQEKKDSKQTKTEDRELSADGAQEATGTQRQSKSEHEASDAKVPVEGKRCPTSEAQKRPADVSPASVSGELNAGKAQREPLTRARSEEMGRIVPGLPLGWAKFLDPITGTFRYYHSPTNTVHMYPPEMAPSSAPPSTPPTHKVKPQVPAERDREPSKLKRSYSSPDITQALQEEEKRRPAVTPMVNRENKPPCYPKAEISRLSASQIRNLNPVFGGSGPALTGLRNLGNTCYMNSILQCLCNAPHLADYFNRNCYQDDINRSNLLGHKGEVAEEFGIIMKALWTGQYRYISPKDFKVTIGKINDQFAGSSQQDSQELLLFLMDGLHEDLNKEPSQQRNYIR
IRESfinder result
IRESfinder score
0.495576761
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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