top of page
mmu_circAtp9b_659
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp9b_659
mm39_Chr. Position ID:
chr18|80912956|80961093|-
Gene name:
Atp9b
Transcript:
ENSMUST00000091790.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,7573,22073,39850,43055,47963
Genomic length:
48137
Exon/intron sizes in nt:
52,59,109,114,151,174
Flanking exon/introns:
chr18:80901853-80912956|chr18:80961093-80977038
Splice length:
659
Other database IDs:
circBase: mmu_circ_0007560, CIRCpedia: MMU_CIRCpedia_30647, circAtlas: mmu-Atp9b_0022
circBase: hsa_circ_0004057, circAtlas: hsa-ATP9B_0021, CIRCpedia: HSA_CIRCpedia_24348
Human Ortholog IDs:
Mature spliced Sequence:
GTACCAGCTGGAGGATGAGTCTGCCCATTTGGATGAAATGCCACTGATGATGTCTGAAGAAGGCTTTGAGAATGATGAAAGTGATTACCACACATTACCTCGAGCTAGGATAACACGGAGAAAGAGAGGACTGGAGTGGTTTGTCTGTGGAGGATGGAAGTTCCTCTGTACCAGTTGCTGTGATTGGCTAATAAATGTTTGTCAAAGGAAGAAAGAGCTAAAAGCTCGAACAGTATGGCTTGGATGTCCAGAGAAGTGTGAAGAGAAACATCCTAGGAATTCTATCAAAAATCAGAAATACAATGTATTTACCTTTATACCTGGGGTTTTGTATGAACAATTCAAGTTTTTCTTGAATCTCTATTTTCTGGTAGTGTCCTGCTCACAGTTTGTACCAGCATTGAAAATTGGCTACCTCTACACCTACTGGGCTCCTCTGGGATTTGTTTTGGCCGTTACGATTGCACGTGAAGCGATTGATGAATTTCGACGTTTTCAGCGAGACAAGGAAATGAATTCACAGTTATATAGCAAGCTTACAGTAAGAGGTAAAGTTCAAGTTAAGAGCTCAGACATACAAGTTGGAGACCTCATCATAGTGGAAAAGAACCAAAGAATTCCATCAGATATGGTATTTCTTAGAACTTCAGAGAAAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTTGGAGACCTCATCATAGTGG
59.29
TCTTCAGACATCATCAGTGGCA
59.43
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTCAGACATACAAGTTGGAGA
59.17
TCTTCAGACATCATCAGTGGCA
59.43
154
PCR template sequence:
GTTAAGAGCTCAGACATACAAGTTGGAGACCTCATCATAGTGGAAAAGAACCAAAGAATTCCATCAGATATGGTATTTCTTAGAACTTCAGAGAAAGCAGGTACCAGCTGGAGGATGAGTCTGCCCATTTGGATGAAATGCCACTGATGATGTCTGAAGAAGGCTTTGAGAATGATGAAAGTGATTACCACACATTACCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-let-7a-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-let-7d-5p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-98-5p(1), mmu-miR-384-3p(1), mmu-miR-466a-5p(1), mmu-miR-673-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAGAGAAAGCAGGTACCAGCTGGAG
siRNA sets
CTGGTACCTGCTTTCTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP9B_659_ORF_1
0.4682
-0.047017718
0.557795168
669
ORF sequence:
ATGCCACTGATGATGTCTGAAGAAGGCTTTGAGAATGATGAAAGTGATTACCACACATTACCTCGAGCTAGGATAACACGGAGAAAGAGAGGACTGGAGTGGTTTGTCTGTGGAGGATGGAAGTTCCTCTGTACCAGTTGCTGTGATTGGCTAATAAATGTTTGTCAAAGGAAGAAAGAGCTAAAAGCTCGAACAGTATGGCTTGGATGTCCAGAGAAGTGTGAAGAGAAACATCCTAGGAATTCTATCAAAAATCAGAAATACAATGTATTTACCTTTATACCTGGGGTTTTGTATGAACAATTCAAGTTTTTCTTGAATCTCTATTTTCTGGTAGTGTCCTGCTCACAGTTTGTACCAGCATTGAAAATTGGCTACCTCTACACCTACTGGGCTCCTCTGGGATTTGTTTTGGCCGTTACGATTGCACGTGAAGCGATTGATGAATTTCGACGTTTTCAGCGAGACAAGGAAATGAATTCACAGTTATATAGCAAGCTTACAGTAAGAGGTAAAGTTCAAGTTAAGAGCTCAGACATACAAGTTGGAGACCTCATCATAGTGGAAAAGAACCAAAGAATTCCATCAGATATGGTATTTCTTAGAACTTCAGAGAAAGCAGGTACCAGCTGGAGGATGAGTCTGCCCATTTGGATGAAATGCCACTGA
Peptide sequence:
MPLMMSEEGFENDESDYHTLPRARITRRKRGLEWFVCGGWKFLCTSCCDWLINVCQRKKELKARTVWLGCPEKCEEKHPRNSIKNQKYNVFTFIPGVLYEQFKFFLNLYFLVVSCSQFVPALKIGYLYTYWAPLGFVLAVTIAREAIDEFRRFQRDKEMNSQLYSKLTVRGKVQVKSSDIQVGDLIIVEKNQRIPSDMVFLRTSEKAGTSWRMSLPIWMKCH
IRESfinder result
IRESfinder score
0.633718043
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page