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mmu_circAtp9b_315
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp9b_315
mm39_Chr. Position ID:
chr18|80901758|80935138|-
Gene name:
Atp9b
Transcript:
ENSMUST00000091790.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,7,6,5
Exon/intron offsets:
0,11198,18771,33271
Genomic length:
33380
Exon/intron sizes in nt:
95,52,59,109
Flanking exon/introns:
chr18:80890467-80901758|chr18:80935138-80952806
Splice length:
315
Other database IDs:
CIRCpedia: MMU_CIRCpedia_30641, circAtlas: mmu-Atp9b_0006
circBase: hsa_circ_0048005, circAtlas: hsa-ATP9B_0007, CIRCpedia: HSA_CIRCpedia_24358
Human Ortholog IDs:
Mature spliced Sequence:
GGATTTGTTTTGGCCGTTACGATTGCACGTGAAGCGATTGATGAATTTCGACGTTTTCAGCGAGACAAGGAAATGAATTCACAGTTATATAGCAAGCTTACAGTAAGAGGTAAAGTTCAAGTTAAGAGCTCAGACATACAAGTTGGAGACCTCATCATAGTGGAAAAGAACCAAAGAATTCCATCAGATATGGTATTTCTTAGAACTTCAGAGAAAGCAGGTTCATGTTTTATCCGCACGGACCAGCTAGATGGTGAGACTGACTGGAAGCTGAAGGTGGCGGTGAGCTGCACACAACGGCTGCCAGCCCTCGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCACGGACCAGCTAGATGG
60.23
TGTCTCGCTGAAAACGTCGA
59.97
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCACGGACCAGCTAGATG
60.59
TGTCTCGCTGAAAACGTCGA
59.97
148
PCR template sequence:
AGCAGGTTCATGTTTTATCCGCACGGACCAGCTAGATGGTGAGACTGACTGGAAGCTGAAGGTGGCGGTGAGCTGCACACAACGGCTGCCAGCCCTCGGGGGATTTGTTTTGGCCGTTACGATTGCACGTGAAGCGATTGATGAATTTCGACGTTTTCAGCGAGACAAGGAAATGAATTCACAGTTATATAGCAAGCTTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCCAGCCCTCGGGGGATTTGTTTTGG
siRNA sets
CAAAACAAATCCCCCGAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP9B_315_ORF_1
0.9374
0.088149385
0.705265571
558
ORF sequence:
ATGAATTCACAGTTATATAGCAAGCTTACAGTAAGAGGTAAAGTTCAAGTTAAGAGCTCAGACATACAAGTTGGAGACCTCATCATAGTGGAAAAGAACCAAAGAATTCCATCAGATATGGTATTTCTTAGAACTTCAGAGAAAGCAGGTTCATGTTTTATCCGCACGGACCAGCTAGATGGTGAGACTGACTGGAAGCTGAAGGTGGCGGTGAGCTGCACACAACGGCTGCCAGCCCTCGGGGGATTTGTTTTGGCCGTTACGATTGCACGTGAAGCGATTGATGAATTTCGACGTTTTCAGCGAGACAAGGAAATGAATTCACAGTTATATAGCAAGCTTACAGTAAGAGGTAAAGTTCAAGTTAAGAGCTCAGACATACAAGTTGGAGACCTCATCATAGTGGAAAAGAACCAAAGAATTCCATCAGATATGGTATTTCTTAGAACTTCAGAGAAAGCAGGTTCATGTTTTATCCGCACGGACCAGCTAGATGGTGAGACTGACTGGAAGCTGAAGGTGGCGGTGAGCTGCACACAACGGCTGCCAGCCCTCGGG
Peptide sequence:
MNSQLYSKLTVRGKVQVKSSDIQVGDLIIVEKNQRIPSDMVFLRTSEKAGSCFIRTDQLDGETDWKLKVAVSCTQRLPALGGFVLAVTIAREAIDEFRRFQRDKEMNSQLYSKLTVRGKVQVKSSDIQVGDLIIVEKNQRIPSDMVFLRTSEKAGSCFIRTDQLDGETDWKLKVAVSCTQRLPALG
IRESfinder result
IRESfinder score
0.52460591
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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