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mmu_circAtp2a2_1066
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp2a2_1066
mm39_Chr. Position ID:
chr5|122605769|122639011|-
Gene name:
Atp2a2
Transcript:
ENSMUST00000179939.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
9,8,7,6,5,4,3,2
Exon/intron offsets:
0,1643,3461,5503,21531,23974,33024,33224
Genomic length:
33242
Exon/intron sizes in nt:
89,465,86,81,139,105,83,18
Flanking exon/introns:
chr5:122604993-122605769|chr5:122639011-122639630
Splice length:
1066
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AATTGCCGGCTGAAGAAGGAAAAACCTTGCTGGAACTTGTGATTGAGCAGTTTGAAGACTTACTAGTTAGAATTTTACTGCTGGCAGCATGTATATCTTTCGTTTTGGCTTGGTTCGAGGAAGGGGAAGAAACGATTACAGCCTTTGTAGAGCCGTTTGTAATTCTGCTTATCTTGGTAGCCAATGCAATCGTGGGTGTGTGGCAGGAAAGAAATGCTGAAAATGCAATAGAAGCTCTTAAGGAATATGAGCCTGAAATGGGCAAAGTGTATCGACAGGACAGAAAGAGTGTGCAACGAATTAAAGCTAAAGACATAGTTCCTGGTGATATAGTGGAAATTGCTGTTGGTGACAAAGTTCCTGCTGATATTAGATTGACATCCATCAAGTCTACAACTCTAAGAGTCGACCAGTCAATTCTTACAGGTGAATCTGTCTCCGTCATCAAGCATACTGACCCTGTCCCTGACCCCCGAGCTGTTAATCAAGACAAAAAGAACATGCTCTTTTCTGGTACAAACATTGCTGCTGGGAAAGCTATGGGAGTGGTGGTGGCAACTGGAGTTAATACTGAGATCGGCAAGATCCGGGATGAAATGGTGGCAACAGAACAGGAGAGAACACCCCTACAGCAGAAGCTAGACGAGTTTGGGGAGCAGCTTTCCAAAGTTATCTCCCTCATTTGCATTGCAGTCTGGATCATCAACATTGGGCATTTCAATGACCCAGTTCATGGTGGCTCCTGGATCAGGGGTGCCATCTACTACTTTAAGATTGCCGTGGCCCTGGCTGTTGCCGCAATCCCTGAGGGTCTGCCTGCTGTCATCACCACCTGCTTAGCTCTTGGAACTCGTAGGATGGCAAAGAAAAATGCTATCGTTCGAAGTCTGCCTTCTGTGGAGACCCTTGGTTGTACTTCTGTTATCTGCTCAGATAAGACAGGCACACTTACCACAAACCAGATGTCCGTGTGCAGGATGTTCATTCTGGACAAAGTAGAAGGTGACACTTGTTCCCTTAATGAGTTCAGCATAACTGGATCCACATATGCACCAATTGGAGAAGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGTGTGCAGGATGTTCATTC
59.87
GCTCAATCACAAGTTCCAGCA
59.12
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCGTGTGCAGGATGTTCATTC
59.87
TGCTCAATCACAAGTTCCAGC
59.12
149
PCR template sequence:
CCGTGTGCAGGATGTTCATTCTGGACAAAGTAGAAGGTGACACTTGTTCCCTTAATGAGTTCAGCATAACTGGATCCACATATGCACCAATTGGAGAAGTAATTGCCGGCTGAAGAAGGAAAAACCTTGCTGGAACTTGTGATTGAGCAGTTTGAAGACTTACTAGTTAGAATTTTACTGCTGGCAGCATGTATATCTTT
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-322-5p(1), mmu-miR-214-3p(1), mmu-miR-541-5p(1), mmu-miR-484(1), mmu-miR-697(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAATTGGAGAAGTAATTGCCGGCTGA
siRNA sets
CAGCCGGCAATTACTTCTC, AGCCGGCAATTACTTCTCC, TCAGCCGGCAATTACTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP2A2_1066_ORF_1
1.1673
0.213604018
0.975469279
822
ORF sequence:
ATGGGCAAAGTGTATCGACAGGACAGAAAGAGTGTGCAACGAATTAAAGCTAAAGACATAGTTCCTGGTGATATAGTGGAAATTGCTGTTGGTGACAAAGTTCCTGCTGATATTAGATTGACATCCATCAAGTCTACAACTCTAAGAGTCGACCAGTCAATTCTTACAGGTGAATCTGTCTCCGTCATCAAGCATACTGACCCTGTCCCTGACCCCCGAGCTGTTAATCAAGACAAAAAGAACATGCTCTTTTCTGGTACAAACATTGCTGCTGGGAAAGCTATGGGAGTGGTGGTGGCAACTGGAGTTAATACTGAGATCGGCAAGATCCGGGATGAAATGGTGGCAACAGAACAGGAGAGAACACCCCTACAGCAGAAGCTAGACGAGTTTGGGGAGCAGCTTTCCAAAGTTATCTCCCTCATTTGCATTGCAGTCTGGATCATCAACATTGGGCATTTCAATGACCCAGTTCATGGTGGCTCCTGGATCAGGGGTGCCATCTACTACTTTAAGATTGCCGTGGCCCTGGCTGTTGCCGCAATCCCTGAGGGTCTGCCTGCTGTCATCACCACCTGCTTAGCTCTTGGAACTCGTAGGATGGCAAAGAAAAATGCTATCGTTCGAAGTCTGCCTTCTGTGGAGACCCTTGGTTGTACTTCTGTTATCTGCTCAGATAAGACAGGCACACTTACCACAAACCAGATGTCCGTGTGCAGGATGTTCATTCTGGACAAAGTAGAAGGTGACACTTGTTCCCTTAATGAGTTCAGCATAACTGGATCCACATATGCACCAATTGGAGAAGTAATTGCCGGCTGA
Peptide sequence:
MGKVYRQDRKSVQRIKAKDIVPGDIVEIAVGDKVPADIRLTSIKSTTLRVDQSILTGESVSVIKHTDPVPDPRAVNQDKKNMLFSGTNIAAGKAMGVVVATGVNTEIGKIRDEMVATEQERTPLQQKLDEFGEQLSKVISLICIAVWIINIGHFNDPVHGGSWIRGAIYYFKIAVALAVAAIPEGLPAVITTCLALGTRRMAKKNAIVRSLPSVETLGCTSVICSDKTGTLTTNQMSVCRMFILDKVEGDTCSLNEFSITGSTYAPIGEVIAG
IRESfinder result
IRESfinder score
0.631395324
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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