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mmu_circAtp2a2_876
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp2a2_876
mm39_Chr. Position ID:
chr5|122607412|122629848|-
Gene name:
Atp2a2
Transcript:
ENSMUST00000179939.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
8,7,6,5,4
Exon/intron offsets:
0,1818,3860,19888,22331
Genomic length:
22436
Exon/intron sizes in nt:
46,58,68,11,39,105
Flanking exon/introns:
chr5:122605858-122607412|chr5:122629848-122638793
Splice length:
876
Other database IDs:
circAtlas: mmu-Atp2a2_0009
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_6608
Human Ortholog IDs:
Mature spliced Sequence:
GTTTTGGCTTGGTTCGAGGAAGGGGAAGAAACGATTACAGCCTTTGTAGAGCCGTTTGTAATTCTGCTTATCTTGGTAGCCAATGCAATCGTGGGTGTGTGGCAGGAAAGAAATGCTGAAAATGCAATAGAAGCTCTTAAGGAATATGAGCCTGAAATGGGCAAAGTGTATCGACAGGACAGAAAGAGTGTGCAACGAATTAAAGCTAAAGACATAGTTCCTGGTGATATAGTGGAAATTGCTGTTGGTGACAAAGTTCCTGCTGATATTAGATTGACATCCATCAAGTCTACAACTCTAAGAGTCGACCAGTCAATTCTTACAGGTGAATCTGTCTCCGTCATCAAGCATACTGACCCTGTCCCTGACCCCCGAGCTGTTAATCAAGACAAAAAGAACATGCTCTTTTCTGGTACAAACATTGCTGCTGGGAAAGCTATGGGAGTGGTGGTGGCAACTGGAGTTAATACTGAGATCGGCAAGATCCGGGATGAAATGGTGGCAACAGAACAGGAGAGAACACCCCTACAGCAGAAGCTAGACGAGTTTGGGGAGCAGCTTTCCAAAGTTATCTCCCTCATTTGCATTGCAGTCTGGATCATCAACATTGGGCATTTCAATGACCCAGTTCATGGTGGCTCCTGGATCAGGGGTGCCATCTACTACTTTAAGATTGCCGTGGCCCTGGCTGTTGCCGCAATCCCTGAGGGTCTGCCTGCTGTCATCACCACCTGCTTAGCTCTTGGAACTCGTAGGATGGCAAAGAAAAATGCTATCGTTCGAAGTCTGCCTTCTGTGGAGACCCTTGGTTGTACTTCTGTTATCTGCTCAGATAAGACAGGCACACTTACCACAAACCAGATGTCCGTGTGCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCTGCCTTCTGTGGAGACC
60.04
AACGGCTCTACAAAGGCTGT
59.6
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGTGGAGACCCTTGGTTGT
59.53
ACCCACGATTGCATTGGCTA
60.03
179
PCR template sequence:
CGTTCGAAGTCTGCCTTCTGTGGAGACCCTTGGTTGTACTTCTGTTATCTGCTCAGATAAGACAGGCACACTTACCACAAACCAGATGTCCGTGTGCAGGGTTTTGGCTTGGTTCGAGGAAGGGGAAGAAACGATTACAGCCTTTGTAGAGCCGTTTGTAATTCTGCTTATCTTGGTAGCCAATGCAATCGTGGGTGTGT
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-322-5p(1), mmu-miR-214-3p(1), mmu-miR-541-5p(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
GTCCGTGTGCAGGGTTTTGGCTTGGT
siRNA sets
AAGCCAAAACCCTGCACAC, CAAGCCAAAACCCTGCACA, ACCAAGCCAAAACCCTGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP2A2_876_ORF_1
1.1538
0.229108526
0.999909999
1596
ORF sequence:
ATGGGCAAAGTGTATCGACAGGACAGAAAGAGTGTGCAACGAATTAAAGCTAAAGACATAGTTCCTGGTGATATAGTGGAAATTGCTGTTGGTGACAAAGTTCCTGCTGATATTAGATTGACATCCATCAAGTCTACAACTCTAAGAGTCGACCAGTCAATTCTTACAGGTGAATCTGTCTCCGTCATCAAGCATACTGACCCTGTCCCTGACCCCCGAGCTGTTAATCAAGACAAAAAGAACATGCTCTTTTCTGGTACAAACATTGCTGCTGGGAAAGCTATGGGAGTGGTGGTGGCAACTGGAGTTAATACTGAGATCGGCAAGATCCGGGATGAAATGGTGGCAACAGAACAGGAGAGAACACCCCTACAGCAGAAGCTAGACGAGTTTGGGGAGCAGCTTTCCAAAGTTATCTCCCTCATTTGCATTGCAGTCTGGATCATCAACATTGGGCATTTCAATGACCCAGTTCATGGTGGCTCCTGGATCAGGGGTGCCATCTACTACTTTAAGATTGCCGTGGCCCTGGCTGTTGCCGCAATCCCTGAGGGTCTGCCTGCTGTCATCACCACCTGCTTAGCTCTTGGAACTCGTAGGATGGCAAAGAAAAATGCTATCGTTCGAAGTCTGCCTTCTGTGGAGACCCTTGGTTGTACTTCTGTTATCTGCTCAGATAAGACAGGCACACTTACCACAAACCAGATGTCCGTGTGCAGGGTTTTGGCTTGGTTCGAGGAAGGGGAAGAAACGATTACAGCCTTTGTAGAGCCGTTTGTAATTCTGCTTATCTTGGTAGCCAATGCAATCGTGGGTGTGTGGCAGGAAAGAAATGCTGAAAATGCAATAGAAGCTCTTAAGGAATATGAGCCTGAAATGGGCAAAGTGTATCGACAGGACAGAAAGAGTGTGCAACGAATTAAAGCTAAAGACATAGTTCCTGGTGATATAGTGGAAATTGCTGTTGGTGACAAAGTTCCTGCTGATATTAGATTGACATCCATCAAGTCTACAACTCTAAGAGTCGACCAGTCAATTCTTACAGGTGAATCTGTCTCCGTCATCAAGCATACTGACCCTGTCCCTGACCCCCGAGCTGTTAATCAAGACAAAAAGAACATGCTCTTTTCTGGTACAAACATTGCTGCTGGGAAAGCTATGGGAGTGGTGGTGGCAACTGGAGTTAATACTGAGATCGGCAAGATCCGGGATGAAATGGTGGCAACAGAACAGGAGAGAACACCCCTACAGCAGAAGCTAGACGAGTTTGGGGAGCAGCTTTCCAAAGTTATCTCCCTCATTTGCATTGCAGTCTGGATCATCAACATTGGGCATTTCAATGACCCAGTTCATGGTGGCTCCTGGATCAGGGGTGCCATCTACTACTTTAAGATTGCCGTGGCCCTGGCTGTTGCCGCAATCCCTGAGGGTCTGCCTGCTGTCATCACCACCTGCTTAGCTCTTGGAACTCGTAGGATGGCAAAGAAAAATGCTATCGTTCGAAGTCTGCCTTCTGTGGAGACCCTTGGTTGTACTTCTGTTATCTGCTCAGATAAGACAGGCACACTTACCACAAACCAGATGTCCGTGTGCAGG
Peptide sequence:
MGKVYRQDRKSVQRIKAKDIVPGDIVEIAVGDKVPADIRLTSIKSTTLRVDQSILTGESVSVIKHTDPVPDPRAVNQDKKNMLFSGTNIAAGKAMGVVVATGVNTEIGKIRDEMVATEQERTPLQQKLDEFGEQLSKVISLICIAVWIINIGHFNDPVHGGSWIRGAIYYFKIAVALAVAAIPEGLPAVITTCLALGTRRMAKKNAIVRSLPSVETLGCTSVICSDKTGTLTTNQMSVCRVLAWFEEGEETITAFVEPFVILLILVANAIVGVWQERNAENAIEALKEYEPEMGKVYRQDRKSVQRIKAKDIVPGDIVEIAVGDKVPADIRLTSIKSTTLRVDQSILTGESVSVIKHTDPVPDPRAVNQDKKNMLFSGTNIAAGKAMGVVVATGVNTEIGKIRDEMVATEQERTPLQQKLDEFGEQLSKVISLICIAVWIINIGHFNDPVHGGSWIRGAIYYFKIAVALAVAAIPEGLPAVITTCLALGTRRMAKKNAIVRSLPSVETLGCTSVICSDKTGTLTTNQMSVCR
IRESfinder result
IRESfinder score
0.580147317
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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