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mmu_circAtp9b_1106
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp9b_1106
mm39_Chr. Position ID:
chr18|80820012|80920588|-
Gene name:
Atp9b
Transcript:
ENSMUST00000091790.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
15,14,13,12,11,10,9,8,7,6
Exon/intron offsets:
0,2065,18492,31814,59557,67729,70374,81746,92944,100517
Genomic length:
100576
Exon/intron sizes in nt:
249,113,143,161,77,76,81,95,52,59
Flanking exon/introns:
chr18:80809147-80820012|chr18:80920588-80935029
Splice length:
1106
Other database IDs:
CIRCpedia: MMU_CIRCpedia_30605, circAtlas: mmu-Atp9b_0014
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_121454
Human Ortholog IDs:
Mature spliced Sequence:
GTAAAGTTCAAGTTAAGAGCTCAGACATACAAGTTGGAGACCTCATCATAGTGGAAAAGAACCAAAGAATTCCATCAGATATGGTATTTCTTAGAACTTCAGAGAAAGCAGGTTCATGTTTTATCCGCACGGACCAGCTAGATGGTGAGACTGACTGGAAGCTGAAGGTGGCGGTGAGCTGCACACAACGGCTGCCAGCCCTCGGGGACCTTTTTTCTATCAGTGCCTATGTTTATGCTCAGAAGCCACAACTGGATATTCATAGCTTTGAAGGAACATTTACCAGGGAAGACAGTGATCCTCCCATTCATGAGAGTCTCAGCATAGAGAACACTCTGTGGGCAAGCACTATTGTTGCATCAGGTACTGTAATAGGTGTTGTCATTTATACTGGAAAAGAGACTCGAAGTGTAATGAACACATCCAATCCAAAAAATAAGGTTGGTTTATTGGACCTCGAACTCAATCAGCTGACAAAGGCGCTATTTCTGGCTTTAGTTGTTCTTTCTGTTGTTATGGTAACCTTACAGGGATTTGCAGGCCCATGGTACCGTAATCTTTTTCGGTTCCTCCTTCTCTTTTCCTACATCATTCCCATAAGTCTGCGAGTAAACTTGGATATGGGCAAAGCAGCATATGGATGGATGATTATGAAAGATGAGAATATTCCTGGTACAGTTGTTCGGACCAGCACAATACCAGAAGAACTTGGACGCCTGGTGTACTTACTGACAGACAAAACAGGGACGCTCACTCAGAATGAAATGGTATTTAAGCGGCTCCATCTGGGCACTGTCTCCTACGGAACGGACACTATGGACGAAATCCAAAGTCACGTCCTGAATTCCTACCTGCAGGTACACTCACAGCCAAGTGGGCACAACCCAAGCTCTGCTCCACTGAGAAGAAGCCAGTCCTCAACGCCTAAAGTCAAGAAGAGCGTCAGCAGTAGAATCCATGAAGCAGTGAAAGCCATTGCCCTTTGTCATAATGTCACTCCTGTGTATGAGGCTCGGGCTGGCATCACTGGGGAGACTGAGTTTGCTGAAGCAGACCAAGACTTTAGTGATGAGAACCGCACCTACCAGGCCTCCAGCCCCGATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCATCACTGGGGAGACTGAG
59.82
TCCACTATGATGAGGTCTCCA
57.31
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCATCACTGGGGAGACTGAG
59.82
TCCACTATGATGAGGTCTCCAAC
59.29
141
PCR template sequence:
TGAGGCTCGGGCTGGCATCACTGGGGAGACTGAGTTTGCTGAAGCAGACCAAGACTTTAGTGATGAGAACCGCACCTACCAGGCCTCCAGCCCCGATGAGGTAAAGTTCAAGTTAAGAGCTCAGACATACAAGTTGGAGACCTCATCATAGTGGAAAAGAACCAAAGAATTCCATCAGATATGGTATTTCTTAGAACTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-135a-5p(1), mmu-miR-101a-3p(1), mmu-miR-101b-3p(1), mmu-miR-1198-5p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCCCCGATGAGGTAAAGTTCAAGT
siRNA sets
TTGAACTTTACCTCATCGG, CTTGAACTTTACCTCATCG, ACTTGAACTTTACCTCATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP9B_1106_ORF_1
1.0065
0.141308921
0.992801537
1077
ORF sequence:
ATGGTATTTCTTAGAACTTCAGAGAAAGCAGGTTCATGTTTTATCCGCACGGACCAGCTAGATGGTGAGACTGACTGGAAGCTGAAGGTGGCGGTGAGCTGCACACAACGGCTGCCAGCCCTCGGGGACCTTTTTTCTATCAGTGCCTATGTTTATGCTCAGAAGCCACAACTGGATATTCATAGCTTTGAAGGAACATTTACCAGGGAAGACAGTGATCCTCCCATTCATGAGAGTCTCAGCATAGAGAACACTCTGTGGGCAAGCACTATTGTTGCATCAGGTACTGTAATAGGTGTTGTCATTTATACTGGAAAAGAGACTCGAAGTGTAATGAACACATCCAATCCAAAAAATAAGGTTGGTTTATTGGACCTCGAACTCAATCAGCTGACAAAGGCGCTATTTCTGGCTTTAGTTGTTCTTTCTGTTGTTATGGTAACCTTACAGGGATTTGCAGGCCCATGGTACCGTAATCTTTTTCGGTTCCTCCTTCTCTTTTCCTACATCATTCCCATAAGTCTGCGAGTAAACTTGGATATGGGCAAAGCAGCATATGGATGGATGATTATGAAAGATGAGAATATTCCTGGTACAGTTGTTCGGACCAGCACAATACCAGAAGAACTTGGACGCCTGGTGTACTTACTGACAGACAAAACAGGGACGCTCACTCAGAATGAAATGGTATTTAAGCGGCTCCATCTGGGCACTGTCTCCTACGGAACGGACACTATGGACGAAATCCAAAGTCACGTCCTGAATTCCTACCTGCAGGTACACTCACAGCCAAGTGGGCACAACCCAAGCTCTGCTCCACTGAGAAGAAGCCAGTCCTCAACGCCTAAAGTCAAGAAGAGCGTCAGCAGTAGAATCCATGAAGCAGTGAAAGCCATTGCCCTTTGTCATAATGTCACTCCTGTGTATGAGGCTCGGGCTGGCATCACTGGGGAGACTGAGTTTGCTGAAGCAGACCAAGACTTTAGTGATGAGAACCGCACCTACCAGGCCTCCAGCCCCGATGAGGTAAAGTTCAAGTTAAGAGCTCAGACATACAAGTTGGAGACCTCATCATAG
Peptide sequence:
MVFLRTSEKAGSCFIRTDQLDGETDWKLKVAVSCTQRLPALGDLFSISAYVYAQKPQLDIHSFEGTFTREDSDPPIHESLSIENTLWASTIVASGTVIGVVIYTGKETRSVMNTSNPKNKVGLLDLELNQLTKALFLALVVLSVVMVTLQGFAGPWYRNLFRFLLLFSYIIPISLRVNLDMGKAAYGWMIMKDENIPGTVVRTSTIPEELGRLVYLLTDKTGTLTQNEMVFKRLHLGTVSYGTDTMDEIQSHVLNSYLQVHSQPSGHNPSSAPLRRSQSSTPKVKKSVSSRIHEAVKAIALCHNVTPVYEARAGITGETEFAEADQDFSDENRTYQASSPDEVKFKLRAQTYKLETSS
IRESfinder result
IRESfinder score
0.600124291
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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