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mmu_circAtp8b5_806
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp8b5_806
mm39_Chr. Position ID:
chr4|43302581|43324928|+
Gene name:
Atp8b5
Transcript:
ENSMUST00000056010.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
4,5,6,7,8,9,10,11,12
Exon/intron offsets:
0,2068,3149,5906,8874,9314,18010,19828,22258
Genomic length:
22347
Exon/intron sizes in nt:
56,114,99,62,73,71,83,159,89
Flanking exon/introns:
chr4:43291731-43302581|chr4:43324928-43334144
Splice length:
806
Other database IDs:
circAtlas: mmu-Atp8b5_0005
circAtlas: hsa-ATP8B5P_0001
Human Ortholog IDs:
Mature spliced Sequence:
AGGAAAGGATTTTGCAGGCCAACAATAGAAGGTTCAACTCTCTTTTTGAGTATCCGGACAATTCCATCAAGACATCAAAGTATGGTTTCTTTAACTTCCTGCCCATGAACCTGTTTGAACAGTTCCAGAGACTTGCAAATGCCTATTTCCTCATTTTGCTCTTCCTACAGTTGGTCCCGCAGATCTCCTCCCTGGCCTGGTACACGACCGTGATACCCCTGATTGTGGTGCTATCCATAACTGGAGTGAAAGACGCCATCGATGACGTGAAAAGACACCGAAGTGACCAGCAGATCAACAACCGCTCTGTTTCAATCCTGGTGAACGGCAGGGTTGAGGAGATCAAGTGGAGGAATGTCCAAGTGGGGGACATAATTAAGCTGGAGAATAACCATCCTGTTACCGCAGACATGCTGTTGCTCTCTAGCAGTGAGCCGTACGGCCTGACATACATTGAAACAGCAGACCTGGACGGTGAAACCAACCTGAAAGTGAAGCAAGCCATCTCCGTCACCAGTGCCATGGAGGACAACCTGGAGCTGCTGTCCTCCTTTAATGGAGAAGTTAGGTGTGATCCTCCTAATAACAAGCTGGACAAGTTTTCTGGAACCCTGAGCTACCTGGGGAACACCTACTTACTGAACCATGAAAGGCTACTGCTCCGAGGCTGCGTCATCCGGAACACAGACTGGTGCTACGGTTTGGTCGTTTACACTGGGCAAGACACCAAATTAATGCAGAACAGTGGACGGTCCACCTTCAAACGAACACATATAGATCATCTCATGAATGTCCTTGTGGTCTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGTTTACACTGGGCAAGACAC
59.74
GAGTTGAACCTTCTATTGTTGGCC
60.08
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACACTGGGCAAGACACCAAA
60.03
GGAATTGTCCGGATACTCAAA
55.68
160
PCR template sequence:
CGTTTACACTGGGCAAGACACCAAATTAATGCAGAACAGTGGACGGTCCACCTTCAAACGAACACATATAGATCATCTCATGAATGTCCTTGTGGTCTGGAGGAAAGGATTTTGCAGGCCAACAATAGAAGGTTCAACTCTCTTTTTGAGTATCCGGACAATTCCATCAAGACATCAAAGTATGGTTTCTTTAACTTCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-135a-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-181b-5p(1), mmu-miR-183-5p(1), mmu-miR-297a-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTTGTGGTCTGGAGGAAAGGATTTT
siRNA sets
AAATCCTTTCCTCCAGACC,AAAATCCTTTCCTCCAGAC,TTTCCTCCAGACCACAAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP8B5_806_ORF_1
1.198
0.259885916
0.979262659
810
ORF sequence:
ATGAACCTGTTTGAACAGTTCCAGAGACTTGCAAATGCCTATTTCCTCATTTTGCTCTTCCTACAGTTGGTCCCGCAGATCTCCTCCCTGGCCTGGTACACGACCGTGATACCCCTGATTGTGGTGCTATCCATAACTGGAGTGAAAGACGCCATCGATGACGTGAAAAGACACCGAAGTGACCAGCAGATCAACAACCGCTCTGTTTCAATCCTGGTGAACGGCAGGGTTGAGGAGATCAAGTGGAGGAATGTCCAAGTGGGGGACATAATTAAGCTGGAGAATAACCATCCTGTTACCGCAGACATGCTGTTGCTCTCTAGCAGTGAGCCGTACGGCCTGACATACATTGAAACAGCAGACCTGGACGGTGAAACCAACCTGAAAGTGAAGCAAGCCATCTCCGTCACCAGTGCCATGGAGGACAACCTGGAGCTGCTGTCCTCCTTTAATGGAGAAGTTAGGTGTGATCCTCCTAATAACAAGCTGGACAAGTTTTCTGGAACCCTGAGCTACCTGGGGAACACCTACTTACTGAACCATGAAAGGCTACTGCTCCGAGGCTGCGTCATCCGGAACACAGACTGGTGCTACGGTTTGGTCGTTTACACTGGGCAAGACACCAAATTAATGCAGAACAGTGGACGGTCCACCTTCAAACGAACACATATAGATCATCTCATGAATGTCCTTGTGGTCTGGAGGAAAGGATTTTGCAGGCCAACAATAGAAGGTTCAACTCTCTTTTTGAGTATCCGGACAATTCCATCAAGACATCAAAGTATGGTTTCTTTAACTTCCTGCCCATGA
Peptide sequence:
MNLFEQFQRLANAYFLILLFLQLVPQISSLAWYTTVIPLIVVLSITGVKDAIDDVKRHRSDQQINNRSVSILVNGRVEEIKWRNVQVGDIIKLENNHPVTADMLLLSSSEPYGLTYIETADLDGETNLKVKQAISVTSAMEDNLELLSSFNGEVRCDPPNNKLDKFSGTLSYLGNTYLLNHERLLLRGCVIRNTDWCYGLVVYTGQDTKLMQNSGRSTFKRTHIDHLMNVLVVWRKGFCRPTIEGSTLFLSIRTIPSRHQSMVSLTSCP
IRESfinder result
IRESfinder score
0.535844883
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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