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mmu_circAtp9b_743
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp9b_743
mm39_Chr. Position ID:
chr18|80820012|80879646|-
Gene name:
Atp9b
Transcript:
ENSMUST00000091790.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
15,14,13,12,11
Exon/intron offsets:
0,2065,18492,31814,59557
Genomic length:
59634
Exon/intron sizes in nt:
249,113,143,161,77
Flanking exon/introns:
chr18:80809147-80820012|chr18:80879646-80887741
Splice length:
743
Other database IDs:
CIRCpedia: MMU_CIRCpedia_218772, circAtlas: mmu-Atp9b_0041
circBase: hsa_circ_0048017, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_24374
Human Ortholog IDs:
Mature spliced Sequence:
GTACTGTAATAGGTGTTGTCATTTATACTGGAAAAGAGACTCGAAGTGTAATGAACACATCCAATCCAAAAAATAAGGTTGGTTTATTGGACCTCGAACTCAATCAGCTGACAAAGGCGCTATTTCTGGCTTTAGTTGTTCTTTCTGTTGTTATGGTAACCTTACAGGGATTTGCAGGCCCATGGTACCGTAATCTTTTTCGGTTCCTCCTTCTCTTTTCCTACATCATTCCCATAAGTCTGCGAGTAAACTTGGATATGGGCAAAGCAGCATATGGATGGATGATTATGAAAGATGAGAATATTCCTGGTACAGTTGTTCGGACCAGCACAATACCAGAAGAACTTGGACGCCTGGTGTACTTACTGACAGACAAAACAGGGACGCTCACTCAGAATGAAATGGTATTTAAGCGGCTCCATCTGGGCACTGTCTCCTACGGAACGGACACTATGGACGAAATCCAAAGTCACGTCCTGAATTCCTACCTGCAGGTACACTCACAGCCAAGTGGGCACAACCCAAGCTCTGCTCCACTGAGAAGAAGCCAGTCCTCAACGCCTAAAGTCAAGAAGAGCGTCAGCAGTAGAATCCATGAAGCAGTGAAAGCCATTGCCCTTTGTCATAATGTCACTCCTGTGTATGAGGCTCGGGCTGGCATCACTGGGGAGACTGAGTTTGCTGAAGCAGACCAAGACTTTAGTGATGAGAACCGCACCTACCAGGCCTCCAGCCCCGATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGGAGACTGAGTTTGCTG
59.6
TCGAGGTCCAATAAACCAACCT
59.36
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGGGGAGACTGAGTTTGC
59.6
TCGAGGTCCAATAAACCAACCT
59.36
178
PCR template sequence:
TGAGGCTCGGGCTGGCATCACTGGGGAGACTGAGTTTGCTGAAGCAGACCAAGACTTTAGTGATGAGAACCGCACCTACCAGGCCTCCAGCCCCGATGAGGTACTGTAATAGGTGTTGTCATTTATACTGGAAAAGAGACTCGAAGTGTAATGAACACATCCAATCCAAAAAATAAGGTTGGTTTATTGGACCTCGAACT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-1198-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCCCCGATGAGGTACTGTAATAGG
siRNA sets
ATTACAGTACCTCATCGGG, CTATTACAGTACCTCATCG, TATTACAGTACCTCATCGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP9B_743_ORF_1
0.9897
0.183110503
0.915069339
702
ORF sequence:
ATGAACACATCCAATCCAAAAAATAAGGTTGGTTTATTGGACCTCGAACTCAATCAGCTGACAAAGGCGCTATTTCTGGCTTTAGTTGTTCTTTCTGTTGTTATGGTAACCTTACAGGGATTTGCAGGCCCATGGTACCGTAATCTTTTTCGGTTCCTCCTTCTCTTTTCCTACATCATTCCCATAAGTCTGCGAGTAAACTTGGATATGGGCAAAGCAGCATATGGATGGATGATTATGAAAGATGAGAATATTCCTGGTACAGTTGTTCGGACCAGCACAATACCAGAAGAACTTGGACGCCTGGTGTACTTACTGACAGACAAAACAGGGACGCTCACTCAGAATGAAATGGTATTTAAGCGGCTCCATCTGGGCACTGTCTCCTACGGAACGGACACTATGGACGAAATCCAAAGTCACGTCCTGAATTCCTACCTGCAGGTACACTCACAGCCAAGTGGGCACAACCCAAGCTCTGCTCCACTGAGAAGAAGCCAGTCCTCAACGCCTAAAGTCAAGAAGAGCGTCAGCAGTAGAATCCATGAAGCAGTGAAAGCCATTGCCCTTTGTCATAATGTCACTCCTGTGTATGAGGCTCGGGCTGGCATCACTGGGGAGACTGAGTTTGCTGAAGCAGACCAAGACTTTAGTGATGAGAACCGCACCTACCAGGCCTCCAGCCCCGATGAGGTACTGTAA
Peptide sequence:
MNTSNPKNKVGLLDLELNQLTKALFLALVVLSVVMVTLQGFAGPWYRNLFRFLLLFSYIIPISLRVNLDMGKAAYGWMIMKDENIPGTVVRTSTIPEELGRLVYLLTDKTGTLTQNEMVFKRLHLGTVSYGTDTMDEIQSHVLNSYLQVHSQPSGHNPSSAPLRRSQSSTPKVKKSVSSRIHEAVKAIALCHNVTPVYEARAGITGETEFAEADQDFSDENRTYQASSPDEVL
IRESfinder result
IRESfinder score
0.544310019
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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