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mmu_circAtp9b_666
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp9b_666
mm39_Chr. Position ID:
chr18|80820012|80851987|-
Gene name:
Atp9b
Transcript:
ENSMUST00000091790.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
15,14,13,12
Exon/intron offsets:
0,2065,18492,31814
Genomic length:
31975
Exon/intron sizes in nt:
2,49,11,31,43,161
Flanking exon/introns:
chr18:80809147-80820012|chr18:80851987-80879569
Splice length:
666
Other database IDs:
CIRCpedia: MMU_CIRCpedia_30603, circAtlas: mmu-Atp9b_0036
circBase: hsa_circ_0048018, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_24376
Human Ortholog IDs:
Mature spliced Sequence:
GTTGGTTTATTGGACCTCGAACTCAATCAGCTGACAAAGGCGCTATTTCTGGCTTTAGTTGTTCTTTCTGTTGTTATGGTAACCTTACAGGGATTTGCAGGCCCATGGTACCGTAATCTTTTTCGGTTCCTCCTTCTCTTTTCCTACATCATTCCCATAAGTCTGCGAGTAAACTTGGATATGGGCAAAGCAGCATATGGATGGATGATTATGAAAGATGAGAATATTCCTGGTACAGTTGTTCGGACCAGCACAATACCAGAAGAACTTGGACGCCTGGTGTACTTACTGACAGACAAAACAGGGACGCTCACTCAGAATGAAATGGTATTTAAGCGGCTCCATCTGGGCACTGTCTCCTACGGAACGGACACTATGGACGAAATCCAAAGTCACGTCCTGAATTCCTACCTGCAGGTACACTCACAGCCAAGTGGGCACAACCCAAGCTCTGCTCCACTGAGAAGAAGCCAGTCCTCAACGCCTAAAGTCAAGAAGAGCGTCAGCAGTAGAATCCATGAAGCAGTGAAAGCCATTGCCCTTTGTCATAATGTCACTCCTGTGTATGAGGCTCGGGCTGGCATCACTGGGGAGACTGAGTTTGCTGAAGCAGACCAAGACTTTAGTGATGAGAACCGCACCTACCAGGCCTCCAGCCCCGATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCATCACTGGGGAGACTGAG
59.82
AGCCAGAAATAGCGCCTTTG
58.9
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCATCACTGGGGAGACTGAG
59.82
AAGCCAGAAATAGCGCCTTTG
59.53
141
PCR template sequence:
TGAGGCTCGGGCTGGCATCACTGGGGAGACTGAGTTTGCTGAAGCAGACCAAGACTTTAGTGATGAGAACCGCACCTACCAGGCCTCCAGCCCCGATGAGGTTGGTTTATTGGACCTCGAACTCAATCAGCTGACAAAGGCGCTATTTCTGGCTTTAGTTGTTCTTTCTGTTGTTATGGTAACCTTACAGGGATTTGCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCCCCGATGAGGTTGGTTTATTGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP9B_666_ORF_1
1.0353
0.221052289
0.998675977
1257
ORF sequence:
ATGGTAACCTTACAGGGATTTGCAGGCCCATGGTACCGTAATCTTTTTCGGTTCCTCCTTCTCTTTTCCTACATCATTCCCATAAGTCTGCGAGTAAACTTGGATATGGGCAAAGCAGCATATGGATGGATGATTATGAAAGATGAGAATATTCCTGGTACAGTTGTTCGGACCAGCACAATACCAGAAGAACTTGGACGCCTGGTGTACTTACTGACAGACAAAACAGGGACGCTCACTCAGAATGAAATGGTATTTAAGCGGCTCCATCTGGGCACTGTCTCCTACGGAACGGACACTATGGACGAAATCCAAAGTCACGTCCTGAATTCCTACCTGCAGGTACACTCACAGCCAAGTGGGCACAACCCAAGCTCTGCTCCACTGAGAAGAAGCCAGTCCTCAACGCCTAAAGTCAAGAAGAGCGTCAGCAGTAGAATCCATGAAGCAGTGAAAGCCATTGCCCTTTGTCATAATGTCACTCCTGTGTATGAGGCTCGGGCTGGCATCACTGGGGAGACTGAGTTTGCTGAAGCAGACCAAGACTTTAGTGATGAGAACCGCACCTACCAGGCCTCCAGCCCCGATGAGGTTGGTTTATTGGACCTCGAACTCAATCAGCTGACAAAGGCGCTATTTCTGGCTTTAGTTGTTCTTTCTGTTGTTATGGTAACCTTACAGGGATTTGCAGGCCCATGGTACCGTAATCTTTTTCGGTTCCTCCTTCTCTTTTCCTACATCATTCCCATAAGTCTGCGAGTAAACTTGGATATGGGCAAAGCAGCATATGGATGGATGATTATGAAAGATGAGAATATTCCTGGTACAGTTGTTCGGACCAGCACAATACCAGAAGAACTTGGACGCCTGGTGTACTTACTGACAGACAAAACAGGGACGCTCACTCAGAATGAAATGGTATTTAAGCGGCTCCATCTGGGCACTGTCTCCTACGGAACGGACACTATGGACGAAATCCAAAGTCACGTCCTGAATTCCTACCTGCAGGTACACTCACAGCCAAGTGGGCACAACCCAAGCTCTGCTCCACTGAGAAGAAGCCAGTCCTCAACGCCTAAAGTCAAGAAGAGCGTCAGCAGTAGAATCCATGAAGCAGTGAAAGCCATTGCCCTTTGTCATAATGTCACTCCTGTGTATGAGGCTCGGGCTGGCATCACTGGGGAGACTGAGTTTGCTGAAGCAGACCAAGACTTTAGTGATGAGAACCGCACCTACCAGGCCTCCAGCCCCGATGAG
Peptide sequence:
MVTLQGFAGPWYRNLFRFLLLFSYIIPISLRVNLDMGKAAYGWMIMKDENIPGTVVRTSTIPEELGRLVYLLTDKTGTLTQNEMVFKRLHLGTVSYGTDTMDEIQSHVLNSYLQVHSQPSGHNPSSAPLRRSQSSTPKVKKSVSSRIHEAVKAIALCHNVTPVYEARAGITGETEFAEADQDFSDENRTYQASSPDEVGLLDLELNQLTKALFLALVVLSVVMVTLQGFAGPWYRNLFRFLLLFSYIIPISLRVNLDMGKAAYGWMIMKDENIPGTVVRTSTIPEELGRLVYLLTDKTGTLTQNEMVFKRLHLGTVSYGTDTMDEIQSHVLNSYLQVHSQPSGHNPSSAPLRRSQSSTPKVKKSVSSRIHEAVKAIALCHNVTPVYEARAGITGETEFAEADQDFSDENRTYQASSPDE
IRESfinder result
IRESfinder score
0.540219648
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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