top of page
mmu_circAtp8a1_672_1
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp8a1_672_1
mm39_Chr. Position ID:
chr5|67824663|67863387|-
Gene name:
Atp8a1
Transcript:
ENSMUST00000135930.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
26,25,24,23,22
Exon/intron offsets:
0,203,15437,35659,38585
Genomic length:
38724
Exon/intron sizes in nt:
1,11,18,41,73,65,139
Flanking exon/introns:
chr5:67817511-67824663|chr5:67863387-67887134
Splice length:
672
Other database IDs:
CIRCpedia: MMU_CIRCpedia_26817, circAtlas: mmu-Atp8a1_0018
circBase: hsa_circ_0069606, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_123875
Human Ortholog IDs:
Mature spliced Sequence:
AATCTTCAGCTACTTGGAGCTACAGCCATTGAGGATAAATTGCAGGACCAAGTGCCTGAAACCATAGAAACGCTAATGAAGGCTGACATCAAAATATGGATCCTTACTGGGGACAAGCAAGAAACTGCCATTAATATTGGACACTCCTGTAGACTCCTCAAGAGGAACATGGGAATGATCGTGATAAACGAGGGCTCTCTTGACGGCACGAGGGAAACTCTCAGCCGCCACTGCACCACCCTGGGAGATGCTCTTCGGAAGGAAAATGATTTTGCTCTTATAATTGATGGGAAGACCCTCAAATATGCCTTAACCTTTGGCGTCCGGCAGTATTTCCTGGACTTAGCTCTGTCCTGCAAAGCTGTCATTTGCTGCAGGGTTTCTCCTCTTCAGAAGTCCGAGGTTGTCGAGATGGTTAAGAAACAAGTCAAAGTCATCACACTTGCCATCGGGGATGGAGCAAATGACGTCAGCATGATCCAGACGGCCCATGTGGGTGTTGGGATAAGCGGCAATGAAGGTTTGCAGGCAGCCAACTCTTCAGATTACTCCATCGCTCAGTTCAAATATTTGAAGAATTTGTTGATGGTTCACGGTGCCTGGAATTACAATAGAGTCTCCAAGTGTATCCTGTACTGCTTCTACAAGAACATCGTGCTCTACATCATCGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTTGATGGTTCACGGTGC
59.33
AGGCACTTGGTCCTGCAATT
60.18
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTTGATGGTTCACGGTGC
59.33
GGTTTCAGGCACTTGGTCCT
60.18
156
PCR template sequence:
GAAGAATTTGTTGATGGTTCACGGTGCCTGGAATTACAATAGAGTCTCCAAGTGTATCCTGTACTGCTTCTACAAGAACATCGTGCTCTACATCATCGAGAATCTTCAGCTACTTGGAGCTACAGCCATTGAGGATAAATTGCAGGACCAAGTGCCTGAAACCATAGAAACGCTAATGAAGGCTGACATCAAAATATGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-122-5p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTACATCATCGAGAATCTTCAGCTAC
siRNA sets
TAGCTGAAGATTCTCGATG, TGAAGATTCTCGATGATGT, AAGATTCTCGATGATGTAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP8A1_672_1_ORF_1
1.2799
0.265885034
0.999357988
1269
ORF sequence:
ATGAAGGCTGACATCAAAATATGGATCCTTACTGGGGACAAGCAAGAAACTGCCATTAATATTGGACACTCCTGTAGACTCCTCAAGAGGAACATGGGAATGATCGTGATAAACGAGGGCTCTCTTGACGGCACGAGGGAAACTCTCAGCCGCCACTGCACCACCCTGGGAGATGCTCTTCGGAAGGAAAATGATTTTGCTCTTATAATTGATGGGAAGACCCTCAAATATGCCTTAACCTTTGGCGTCCGGCAGTATTTCCTGGACTTAGCTCTGTCCTGCAAAGCTGTCATTTGCTGCAGGGTTTCTCCTCTTCAGAAGTCCGAGGTTGTCGAGATGGTTAAGAAACAAGTCAAAGTCATCACACTTGCCATCGGGGATGGAGCAAATGACGTCAGCATGATCCAGACGGCCCATGTGGGTGTTGGGATAAGCGGCAATGAAGGTTTGCAGGCAGCCAACTCTTCAGATTACTCCATCGCTCAGTTCAAATATTTGAAGAATTTGTTGATGGTTCACGGTGCCTGGAATTACAATAGAGTCTCCAAGTGTATCCTGTACTGCTTCTACAAGAACATCGTGCTCTACATCATCGAGAATCTTCAGCTACTTGGAGCTACAGCCATTGAGGATAAATTGCAGGACCAAGTGCCTGAAACCATAGAAACGCTAATGAAGGCTGACATCAAAATATGGATCCTTACTGGGGACAAGCAAGAAACTGCCATTAATATTGGACACTCCTGTAGACTCCTCAAGAGGAACATGGGAATGATCGTGATAAACGAGGGCTCTCTTGACGGCACGAGGGAAACTCTCAGCCGCCACTGCACCACCCTGGGAGATGCTCTTCGGAAGGAAAATGATTTTGCTCTTATAATTGATGGGAAGACCCTCAAATATGCCTTAACCTTTGGCGTCCGGCAGTATTTCCTGGACTTAGCTCTGTCCTGCAAAGCTGTCATTTGCTGCAGGGTTTCTCCTCTTCAGAAGTCCGAGGTTGTCGAGATGGTTAAGAAACAAGTCAAAGTCATCACACTTGCCATCGGGGATGGAGCAAATGACGTCAGCATGATCCAGACGGCCCATGTGGGTGTTGGGATAAGCGGCAATGAAGGTTTGCAGGCAGCCAACTCTTCAGATTACTCCATCGCTCAGTTCAAATATTTGAAGAATTTGTTGATGGTTCACGGTGCCTGGAATTACAATAGAGTCTCCAAGTGTATCCTGTACTGCTTCTACAAGAACATCGTGCTCTACATCATCGAG
Peptide sequence:
MKADIKIWILTGDKQETAINIGHSCRLLKRNMGMIVINEGSLDGTRETLSRHCTTLGDALRKENDFALIIDGKTLKYALTFGVRQYFLDLALSCKAVICCRVSPLQKSEVVEMVKKQVKVITLAIGDGANDVSMIQTAHVGVGISGNEGLQAANSSDYSIAQFKYLKNLLMVHGAWNYNRVSKCILYCFYKNIVLYIIENLQLLGATAIEDKLQDQVPETIETLMKADIKIWILTGDKQETAINIGHSCRLLKRNMGMIVINEGSLDGTRETLSRHCTTLGDALRKENDFALIIDGKTLKYALTFGVRQYFLDLALSCKAVICCRVSPLQKSEVVEMVKKQVKVITLAIGDGANDVSMIQTAHVGVGISGNEGLQAANSSDYSIAQFKYLKNLLMVHGAWNYNRVSKCILYCFYKNIVLYIIE
IRESfinder result
IRESfinder score
0.499596117
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page