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mmu_circAtp8a1_607
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp8a1_607
mm39_Chr. Position ID:
chr5|67887134|67908428|-
Gene name:
Atp8a1
Transcript:
ENSMUST00000135930.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
21,20,19,18,17,16,15
Exon/intron offsets:
0,2377,8621,15788,17486,19259,21221
Genomic length:
21294
Exon/intron sizes in nt:
140,85,70,50,83,106,73
Flanking exon/introns:
chr5:67863387-67887134|chr5:67908428-67918456
Splice length:
607
Other database IDs:
circBase: mmu_circ_0001354, CIRCpedia: MMU_CIRCpedia_26848, circAtlas: mmu-Atp8a1_0016
circBase: hsa_circ_0126429, circAtlas: hsa-ATP8A1_0016, CIRCpedia: HSA_CIRCpedia_113807
Human Ortholog IDs:
Mature spliced Sequence:
GCAGAGCTCACAGTTTGGAGATGAAAAAACCTTTAATGACCCGTCGTTGCTGGACAATCTCCAGAATAACCACCCAACCGCACCTATCATCTGTGAATTTCTCACAATGATGGCCGTCTGCCACACAGCTGTACCGGAGAGAGAAGGGGACAAGATCATTTATCAGGCTGCATCGCCAGATGAGGGTGCACTGGTCAGAGCCGCCAAGCAGTTGAATTTTGTCTTCACTGGAAGAACTCCTGACTCTGTCATCATAGATTCACTGGGGCAGGAAGAAAGATATGAATTGCTCAATGTCCTAGAGTTCACCAGTGCTAGGAAGAGGATGTCGGTGGTGGTTCGCACTCCATCCGGGAAGTTACGGCTCTACTGCAAAGGAGCTGACACAGTAATTTATGAACGACTTGCAGAGACCTCAAAGTACAAAGAAATCACCCTAAAACACTTGGAACAGTTTGCTACAGAAGGGCTGAGGACTTTGTGTTTTGCTGTGGCTGAGATTTCTGAGAGCGACTTCGAGGAGTGGCGGGCCGTCTACCACCGCGCATCCACGTCGGTACAGAACAGGCTGCTGAAGCTGGAGGAGAGCTACGAACTAATTGAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCATCCACGTCGGTACAGAA
60.11
ATGATAGGTGCGGTTGGGTG
60.11
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCATCCACGTCGGTACAGAA
60.11
GATGATAGGTGCGGTTGGGT
59.82
154
PCR template sequence:
GAGCGACTTCGAGGAGTGGCGGGCCGTCTACCACCGCGCATCCACGTCGGTACAGAACAGGCTGCTGAAGCTGGAGGAGAGCTACGAACTAATTGAAAAGGCAGAGCTCACAGTTTGGAGATGAAAAAACCTTTAATGACCCGTCGTTGCTGGACAATCTCCAGAATAACCACCCAACCGCACCTATCATCTGTGAATTT
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-216a-5p(1), mmu-miR-384-3p(1), mmu-miR-539-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
ACTAATTGAAAAGGCAGAGCTCACAG
siRNA sets
TGTGAGCTCTGCCTTTTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP8A1_607_ORF_1
0.8909
0.253575166
0.770402111
525
ORF sequence:
ATGATGGCCGTCTGCCACACAGCTGTACCGGAGAGAGAAGGGGACAAGATCATTTATCAGGCTGCATCGCCAGATGAGGGTGCACTGGTCAGAGCCGCCAAGCAGTTGAATTTTGTCTTCACTGGAAGAACTCCTGACTCTGTCATCATAGATTCACTGGGGCAGGAAGAAAGATATGAATTGCTCAATGTCCTAGAGTTCACCAGTGCTAGGAAGAGGATGTCGGTGGTGGTTCGCACTCCATCCGGGAAGTTACGGCTCTACTGCAAAGGAGCTGACACAGTAATTTATGAACGACTTGCAGAGACCTCAAAGTACAAAGAAATCACCCTAAAACACTTGGAACAGTTTGCTACAGAAGGGCTGAGGACTTTGTGTTTTGCTGTGGCTGAGATTTCTGAGAGCGACTTCGAGGAGTGGCGGGCCGTCTACCACCGCGCATCCACGTCGGTACAGAACAGGCTGCTGAAGCTGGAGGAGAGCTACGAACTAATTGAAAAGGCAGAGCTCACAGTTTGGAGATGA
Peptide sequence:
MMAVCHTAVPEREGDKIIYQAASPDEGALVRAAKQLNFVFTGRTPDSVIIDSLGQEERYELLNVLEFTSARKRMSVVVRTPSGKLRLYCKGADTVIYERLAETSKYKEITLKHLEQFATEGLRTLCFAVAEISESDFEEWRAVYHRASTSVQNRLLKLEESYELIEKAELTVWR
IRESfinder result
IRESfinder score
0.344825701
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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