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mmu_circAtp2b2_1222
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp2b2_1222
mm39_Chr. Position ID:
chr6|113782421|113819606|-
Gene name:
Atp2b2
Transcript:
ENSMUST00000101045.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
8,7,6,5,4
Exon/intron offsets:
0,7324,8326,11687,36671
Genomic length:
37185
Exon/intron sizes in nt:
12,61,26,25,81,98,514
Flanking exon/introns:
chr6:113773358-113782421|chr6:113819606-113897469
Splice length:
1222
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAGCTGTCCCGACCATGTAGATGCCAGCCCCAGGGATCAGCATGGGCCCCACTGAATGGAGACTCCTGGGTCAGCATTCCTGAGCCTCTTCGGCCCCTGGACCTCACCCCACTCCTGGGGACACTCCTCAGAGCTCTCCAGTGCTGTCGCCAGCCCACCTCAGCCATCACCTCCTCCTGGGACTCGAAGTTGACCGCCTCGTGCTACTACCCTCTGGTGAGGGTGTACTGAGGGCAGCCACACACAGCCATCACCCAGAGGCCCCTTTTCCAGTGCTGACCCTCAGGCCCAGCCTGAGTAGACACTTCAGCAAACATGGGTGACATGACCAACAGCGACTTTTACTCCAAAAACCAAAGAAATGAGTCGAGCCATGGGGGCGAGTTCGGGTGCACCATGGAGGAGCTGCGCTCCCTCATGGAGCTGCGGGGCACCGAGGCTGTGGTCAAGATCAAGGAGACGTATGGGGACACTGAAGCCATCTGCCGGCGCCTCAAAACCTCGCCTGTTGAAGGTTTACCAGGCACTGCTCCAGACTTGGAAAAGAGGAAACAGATTTTTGGGCAAAACTTCATACCTCCAAAGAAACCAAAAACCTTCCTGCAGCTGGTGTGGGAAGCGCTACAGGACGTGACACTTATCATCCTGGAGATCGCGGCCATCATCTCCCTGGGACTGTCCTTCTACCACCCACCGGGAGAGAGCAATGAAGGATGTGCCACGGCCCAGGGTGGGGCAGAGGATGAAGGTGAAGCAGAAGCAGGCTGGATTGAGGGGGCTGCCATCCTGCTGTCAGTCATCTGTGTGGTCCTGGTCACAGCCTTCAATGACTGGAGTAAGGAGAAACAGTTCCGGGGCCTGCAGAGCCGAATTGAGCAGGAGCAGAAGTTCACTGTGGTCCGGGCCGGCCAGGTGGTTCAGATCCCTGTGGCCGAGATCGTGGTCGGGGACATTGCCCAGATCAAATATGGTGACCTTCTTCCCGCTGATGGCCTCTTCATCCAGGGAAATGACCTCAAAATTGATGAAAGCTCACTCACAGGGGAATCTGACCAGGTGCGCAAGTCTGTGGATAAGGACCCCATGTTGCTGTCAGGAACCCATGTGATGGAGGGCTCAGGACGGATGGTGGTTACTGCTGTGGGTGTGAACTCTCAGACTGGCATCATATTTACCCTGCTTGGGGCTGGTGGTGAAGAGGAAGAGAAGAAAGACAAAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGATGGTGGTTACTGCTGT
60.04
GGAATGCTGACCCAGGAGTC
60.11
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGTGGTTACTGCTGTGGG
59.96
CAGGAATGCTGACCCAGGAG
60.11
179
PCR template sequence:
CGGATGGTGGTTACTGCTGTGGGTGTGAACTCTCAGACTGGCATCATATTTACCCTGCTTGGGGCTGGTGGTGAAGAGGAAGAGAAGAAAGACAAAAAAGGAGCTGTCCCGACCATGTAGATGCCAGCCCCAGGGATCAGCATGGGCCCCACTGAATGGAGACTCCTGGGTCAGCATTCCTGAGCCTCTTCGGCCCCTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-139-5p(1), mmu-miR-128-3p(1), mmu-miR-434-5p(1), mmu-miR-676-3p(1), mmu-miR-758-3p(1), mmu-miR-802-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AAAGACAAAAAAGGAGCTGTCCCGAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP2B2_1222_ORF_1
1.1684
0.443783356
0.99539755
927
ORF sequence:
ATGGGTGACATGACCAACAGCGACTTTTACTCCAAAAACCAAAGAAATGAGTCGAGCCATGGGGGCGAGTTCGGGTGCACCATGGAGGAGCTGCGCTCCCTCATGGAGCTGCGGGGCACCGAGGCTGTGGTCAAGATCAAGGAGACGTATGGGGACACTGAAGCCATCTGCCGGCGCCTCAAAACCTCGCCTGTTGAAGGTTTACCAGGCACTGCTCCAGACTTGGAAAAGAGGAAACAGATTTTTGGGCAAAACTTCATACCTCCAAAGAAACCAAAAACCTTCCTGCAGCTGGTGTGGGAAGCGCTACAGGACGTGACACTTATCATCCTGGAGATCGCGGCCATCATCTCCCTGGGACTGTCCTTCTACCACCCACCGGGAGAGAGCAATGAAGGATGTGCCACGGCCCAGGGTGGGGCAGAGGATGAAGGTGAAGCAGAAGCAGGCTGGATTGAGGGGGCTGCCATCCTGCTGTCAGTCATCTGTGTGGTCCTGGTCACAGCCTTCAATGACTGGAGTAAGGAGAAACAGTTCCGGGGCCTGCAGAGCCGAATTGAGCAGGAGCAGAAGTTCACTGTGGTCCGGGCCGGCCAGGTGGTTCAGATCCCTGTGGCCGAGATCGTGGTCGGGGACATTGCCCAGATCAAATATGGTGACCTTCTTCCCGCTGATGGCCTCTTCATCCAGGGAAATGACCTCAAAATTGATGAAAGCTCACTCACAGGGGAATCTGACCAGGTGCGCAAGTCTGTGGATAAGGACCCCATGTTGCTGTCAGGAACCCATGTGATGGAGGGCTCAGGACGGATGGTGGTTACTGCTGTGGGTGTGAACTCTCAGACTGGCATCATATTTACCCTGCTTGGGGCTGGTGGTGAAGAGGAAGAGAAGAAAGACAAAAAAGGAGCTGTCCCGACCATGTAG
Peptide sequence:
MGDMTNSDFYSKNQRNESSHGGEFGCTMEELRSLMELRGTEAVVKIKETYGDTEAICRRLKTSPVEGLPGTAPDLEKRKQIFGQNFIPPKKPKTFLQLVWEALQDVTLIILEIAAIISLGLSFYHPPGESNEGCATAQGGAEDEGEAEAGWIEGAAILLSVICVVLVTAFNDWSKEKQFRGLQSRIEQEQKFTVVRAGQVVQIPVAEIVVGDIAQIKYGDLLPADGLFIQGNDLKIDESSLTGESDQVRKSVDKDPMLLSGTHVMEGSGRMVVTAVGVNSQTGIIFTLLGAGGEEEEKKDKKGAVPTM
IRESfinder result
IRESfinder score
0.383262676
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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