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mmu_circAtp8a1_534
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp8a1_534
mm39_Chr. Position ID:
chr5|67922206|67932193|-
Gene name:
Atp8a1
Transcript:
ENSMUST00000135930.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
12,11,10,9
Exon/intron offsets:
0,2156,4188,9859
Genomic length:
9987
Exon/intron sizes in nt:
1,28,16,61,12,128
Flanking exon/introns:
chr5:67919936-67922206|chr5:67932193-67933471
Splice length:
534
Other database IDs:
circAtlas: mmu-Atp8a1_0070
circBase: hsa_circ_0126444, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_123891
Human Ortholog IDs:
Mature spliced Sequence:
GGCTTACCGGCAACATCGGATATCAAAGACATTGACAGTTTGATGAGAATTTCTGGCAGAATCGAGTGTGAAAGTCCAAACCGACATCTCTACGATTTTGTTGGGAACATAAGGCTTGATGGCCATGGCACCGTTCCCCTGGGGGCAGACCAGATCCTTCTCCGAGGAGCTCAGTTAAGAAATACCCAGTGGGTTCATGGGATAGTTGTCTACACTGGCCACGACACCAAGCTGATGCAGAATTCCACAAGCCCACCACTTAAACTCTCCAATGTGGAACGGATTACAAATGTACAAATTCTGATTTTATTTTGCATCTTAATTGCCATGTCTCTTGTGTGTTCTGTGGGCTCAGCCATTTGGAACCGAAGGCATTCCGGGAAAGACTGGTACCTCCATCTACACTATGGTGGCGCTAGTAACTTTGGACTGAACTTCCTGACTTTCATTATCCTTTTCAACAACCTCATTCCCATCAGCTTGCTGGTCACATTAGAAGTGGTGAAGTTTACTCAGGCATACTTCATAAATTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCCATCAGCTTGCTGGTC
60.32
CGGTTTGGACTTTCACACTCG
59.74
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTCCCATCAGCTTGCTGGT
59.67
CGGTTTGGACTTTCACACTCG
59.74
149
PCR template sequence:
CTTCCTGACTTTCATTATCCTTTTCAACAACCTCATTCCCATCAGCTTGCTGGTCACATTAGAAGTGGTGAAGTTTACTCAGGCATACTTCATAAATTGGGGCTTACCGGCAACATCGGATATCAAAGACATTGACAGTTTGATGAGAATTTCTGGCAGAATCGAGTGTGAAAGTCCAAACCGACATCTCTACGATTTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTCATAAATTGGGGCTTACCGGCAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP8A1_534_ORF_1
0.994
0.104046366
0.987988003
1026
ORF sequence:
ATGAGAATTTCTGGCAGAATCGAGTGTGAAAGTCCAAACCGACATCTCTACGATTTTGTTGGGAACATAAGGCTTGATGGCCATGGCACCGTTCCCCTGGGGGCAGACCAGATCCTTCTCCGAGGAGCTCAGTTAAGAAATACCCAGTGGGTTCATGGGATAGTTGTCTACACTGGCCACGACACCAAGCTGATGCAGAATTCCACAAGCCCACCACTTAAACTCTCCAATGTGGAACGGATTACAAATGTACAAATTCTGATTTTATTTTGCATCTTAATTGCCATGTCTCTTGTGTGTTCTGTGGGCTCAGCCATTTGGAACCGAAGGCATTCCGGGAAAGACTGGTACCTCCATCTACACTATGGTGGCGCTAGTAACTTTGGACTGAACTTCCTGACTTTCATTATCCTTTTCAACAACCTCATTCCCATCAGCTTGCTGGTCACATTAGAAGTGGTGAAGTTTACTCAGGCATACTTCATAAATTGGGGCTTACCGGCAACATCGGATATCAAAGACATTGACAGTTTGATGAGAATTTCTGGCAGAATCGAGTGTGAAAGTCCAAACCGACATCTCTACGATTTTGTTGGGAACATAAGGCTTGATGGCCATGGCACCGTTCCCCTGGGGGCAGACCAGATCCTTCTCCGAGGAGCTCAGTTAAGAAATACCCAGTGGGTTCATGGGATAGTTGTCTACACTGGCCACGACACCAAGCTGATGCAGAATTCCACAAGCCCACCACTTAAACTCTCCAATGTGGAACGGATTACAAATGTACAAATTCTGATTTTATTTTGCATCTTAATTGCCATGTCTCTTGTGTGTTCTGTGGGCTCAGCCATTTGGAACCGAAGGCATTCCGGGAAAGACTGGTACCTCCATCTACACTATGGTGGCGCTAGTAACTTTGGACTGAACTTCCTGACTTTCATTATCCTTTTCAACAACCTCATTCCCATCAGCTTGCTGGTCACATTAGAAGTGGTGAAGTTTACTCAGGCATACTTCATAAATTGG
Peptide sequence:
MRISGRIECESPNRHLYDFVGNIRLDGHGTVPLGADQILLRGAQLRNTQWVHGIVVYTGHDTKLMQNSTSPPLKLSNVERITNVQILILFCILIAMSLVCSVGSAIWNRRHSGKDWYLHLHYGGASNFGLNFLTFIILFNNLIPISLLVTLEVVKFTQAYFINWGLPATSDIKDIDSLMRISGRIECESPNRHLYDFVGNIRLDGHGTVPLGADQILLRGAQLRNTQWVHGIVVYTGHDTKLMQNSTSPPLKLSNVERITNVQILILFCILIAMSLVCSVGSAIWNRRHSGKDWYLHLHYGGASNFGLNFLTFIILFNNLIPISLLVTLEVVKFTQAYFINW
IRESfinder result
IRESfinder score
0.703231653
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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