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mmu_circAtp8a1_972
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp8a1_972
mm39_Chr. Position ID:
chr5|67805035|67840273|-
Gene name:
Atp8a1
Transcript:
ENSMUST00000135930.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
32,31,30,29,28,27,26,25,24
Exon/intron offsets:
0,832,3895,8213,12177,12401,19628,19831,35065
Genomic length:
35238
Exon/intron sizes in nt:
10,85,76,27,91,23,75,10,00,00,000
Flanking exon/introns:
chr5:67788918-67805035|chr5:67840273-67860322
Splice length:
972
Other database IDs:
circBase: mmu_circ_0012744, CIRCpedia: MMU_CIRCpedia_26809, circAtlas: mmu-Atp8a1_0076
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GGCACGAGGGAAACTCTCAGCCGCCACTGCACCACCCTGGGAGATGCTCTTCGGAAGGAAAATGATTTTGCTCTTATAATTGATGGGAAGACCCTCAAATATGCCTTAACCTTTGGCGTCCGGCAGTATTTCCTGGACTTAGCTCTGTCCTGCAAAGCTGTCATTTGCTGCAGGGTTTCTCCTCTTCAGAAGTCCGAGGTTGTCGAGATGGTTAAGAAACAAGTCAAAGTCATCACACTTGCCATCGGGGATGGAGCAAATGACGTCAGCATGATCCAGACGGCCCATGTGGGTGTTGGGATAAGCGGCAATGAAGGTTTGCAGGCAGCCAACTCTTCAGATTACTCCATCGCTCAGTTCAAATATTTGAAGAATTTGTTGATGGTTCACGGTGCCTGGAATTACAATAGAGTCTCCAAGTGTATCCTGTACTGCTTCTACAAGAACATCGTGCTCTACATCATCGAGATCTGGTTTGCCTTTGTCAACGGCTTTTCTGGACAGATCCTCTTTGAAAGATGGTGTATAGGGCTTTATAATGTGATGTTCACAGCGATGCCTCCCTTGACACTTGGAATATTTGAGAGATCGTGCAGAAAGGAGAACATGTTGAAGTATCCTGAGTTGTACAAAACATCCCAGAATGCTCTGGACTTCAATACCAAGGTTTTCTGGGTTCATTGTTTGAATGGCCTCTTCCACTCCGTTATTCTGTTTTGGTTCCCACTGAAAGCCCTGCAGTATGGCACGGTATTTGGAAATGGGAAAACCTCAGATTACCTGCTTCTGGGAAACTTTGTTTATACTTTTGTAGTGATAACTGTGTGCTTGAAAGCTGGACTGGAAACCTCCTATTGGACATGGTTCAGCCACATCGCCATCTGGGGCAGCATCGCGCTCTGGGTGGTGTTCTTCGGGATCTACTCATCTCTGTGGCCTGCCGTGCCCATGGCCCCTGACATGTCCGGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCTGGGTGGTGTTCTTCGG
60.32
TCATTTTCCTTCCGAAGAGCA
57.58
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCTGGGTGGTGTTCTTCGG
60.32
TCATTTTCCTTCCGAAGAGCATC
59.06
140
PCR template sequence:
CATCGCCATCTGGGGCAGCATCGCGCTCTGGGTGGTGTTCTTCGGGATCTACTCATCTCTGTGGCCTGCCGTGCCCATGGCCCCTGACATGTCCGGAGAGGGCACGAGGGAAACTCTCAGCCGCCACTGCACCACCCTGGGAGATGCTCTTCGGAAGGAAAATGATTTTGCTCTTATAATTGATGGGAAGACCCTCAAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-340-5p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CATGTCCGGAGAGGGCACGAGGGAAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP8A1_972_ORF_1
1.0016
0.180016771
0.999946983
1737
ORF sequence:
ATGGTTAAGAAACAAGTCAAAGTCATCACACTTGCCATCGGGGATGGAGCAAATGACGTCAGCATGATCCAGACGGCCCATGTGGGTGTTGGGATAAGCGGCAATGAAGGTTTGCAGGCAGCCAACTCTTCAGATTACTCCATCGCTCAGTTCAAATATTTGAAGAATTTGTTGATGGTTCACGGTGCCTGGAATTACAATAGAGTCTCCAAGTGTATCCTGTACTGCTTCTACAAGAACATCGTGCTCTACATCATCGAGATCTGGTTTGCCTTTGTCAACGGCTTTTCTGGACAGATCCTCTTTGAAAGATGGTGTATAGGGCTTTATAATGTGATGTTCACAGCGATGCCTCCCTTGACACTTGGAATATTTGAGAGATCGTGCAGAAAGGAGAACATGTTGAAGTATCCTGAGTTGTACAAAACATCCCAGAATGCTCTGGACTTCAATACCAAGGTTTTCTGGGTTCATTGTTTGAATGGCCTCTTCCACTCCGTTATTCTGTTTTGGTTCCCACTGAAAGCCCTGCAGTATGGCACGGTATTTGGAAATGGGAAAACCTCAGATTACCTGCTTCTGGGAAACTTTGTTTATACTTTTGTAGTGATAACTGTGTGCTTGAAAGCTGGACTGGAAACCTCCTATTGGACATGGTTCAGCCACATCGCCATCTGGGGCAGCATCGCGCTCTGGGTGGTGTTCTTCGGGATCTACTCATCTCTGTGGCCTGCCGTGCCCATGGCCCCTGACATGTCCGGAGAGGGCACGAGGGAAACTCTCAGCCGCCACTGCACCACCCTGGGAGATGCTCTTCGGAAGGAAAATGATTTTGCTCTTATAATTGATGGGAAGACCCTCAAATATGCCTTAACCTTTGGCGTCCGGCAGTATTTCCTGGACTTAGCTCTGTCCTGCAAAGCTGTCATTTGCTGCAGGGTTTCTCCTCTTCAGAAGTCCGAGGTTGTCGAGATGGTTAAGAAACAAGTCAAAGTCATCACACTTGCCATCGGGGATGGAGCAAATGACGTCAGCATGATCCAGACGGCCCATGTGGGTGTTGGGATAAGCGGCAATGAAGGTTTGCAGGCAGCCAACTCTTCAGATTACTCCATCGCTCAGTTCAAATATTTGAAGAATTTGTTGATGGTTCACGGTGCCTGGAATTACAATAGAGTCTCCAAGTGTATCCTGTACTGCTTCTACAAGAACATCGTGCTCTACATCATCGAGATCTGGTTTGCCTTTGTCAACGGCTTTTCTGGACAGATCCTCTTTGAAAGATGGTGTATAGGGCTTTATAATGTGATGTTCACAGCGATGCCTCCCTTGACACTTGGAATATTTGAGAGATCGTGCAGAAAGGAGAACATGTTGAAGTATCCTGAGTTGTACAAAACATCCCAGAATGCTCTGGACTTCAATACCAAGGTTTTCTGGGTTCATTGTTTGAATGGCCTCTTCCACTCCGTTATTCTGTTTTGGTTCCCACTGAAAGCCCTGCAGTATGGCACGGTATTTGGAAATGGGAAAACCTCAGATTACCTGCTTCTGGGAAACTTTGTTTATACTTTTGTAGTGATAACTGTGTGCTTGAAAGCTGGACTGGAAACCTCCTATTGGACATGGTTCAGCCACATCGCCATCTGGGGCAGCATCGCGCTCTGGGTGGTGTTCTTCGGGATCTACTCATCTCTGTGGCCTGCCGTGCCCATGGCCCCTGACATGTCCGGAGAG
Peptide sequence:
MVKKQVKVITLAIGDGANDVSMIQTAHVGVGISGNEGLQAANSSDYSIAQFKYLKNLLMVHGAWNYNRVSKCILYCFYKNIVLYIIEIWFAFVNGFSGQILFERWCIGLYNVMFTAMPPLTLGIFERSCRKENMLKYPELYKTSQNALDFNTKVFWVHCLNGLFHSVILFWFPLKALQYGTVFGNGKTSDYLLLGNFVYTFVVITVCLKAGLETSYWTWFSHIAIWGSIALWVVFFGIYSSLWPAVPMAPDMSGEGTRETLSRHCTTLGDALRKENDFALIIDGKTLKYALTFGVRQYFLDLALSCKAVICCRVSPLQKSEVVEMVKKQVKVITLAIGDGANDVSMIQTAHVGVGISGNEGLQAANSSDYSIAQFKYLKNLLMVHGAWNYNRVSKCILYCFYKNIVLYIIEIWFAFVNGFSGQILFERWCIGLYNVMFTAMPPLTLGIFERSCRKENMLKYPELYKTSQNALDFNTKVFWVHCLNGLFHSVILFWFPLKALQYGTVFGNGKTSDYLLLGNFVYTFVVITVCLKAGLETSYWTWFSHIAIWGSIALWVVFFGIYSSLWPAVPMAPDMSGE
IRESfinder result
IRESfinder score
0.584935173
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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