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mmu_circAtp8a1_1591
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp8a1_1591
mm39_Chr. Position ID:
chr5|67863248|67938404|-
Gene name:
Atp8a1
Transcript:
ENSMUST00000135930.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
16
Exon/intron indexes:
22,21,20,19,18,17,16,15,14,13,12,11,10,9,8,7
Exon/intron offsets:
0,23886,26263,32507,39674,41372,43145,45107,55208,56610,58958,61114,63146,68817,70223,75082
Genomic length:
75156
Exon/intron sizes in nt:
139,140,85,70,50,83,106,73,89,78,128,166,112,128,70,74
Flanking exon/introns:
chr5:67860387-67863248|chr5:67938404-67943968
Splice length:
1591
Other database IDs:
circAtlas: mmu-Atp8a1_0085
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_123883
Human Ortholog IDs:
Mature spliced Sequence:
GTAAATGTTGGAGATATAGTTATAATAAAAGGCAAAGAGTATATACCTGCTGACACTGTCCTTCTCTCGTCAAGTGAGCCCCAGGCCATGTGCTACATCGAGACATCCAACTTAGATGGTGAAACAAACTTGAAAATTAGACAAGGCTTACCGGCAACATCGGATATCAAAGACATTGACAGTTTGATGAGAATTTCTGGCAGAATCGAGTGTGAAAGTCCAAACCGACATCTCTACGATTTTGTTGGGAACATAAGGCTTGATGGCCATGGCACCGTTCCCCTGGGGGCAGACCAGATCCTTCTCCGAGGAGCTCAGTTAAGAAATACCCAGTGGGTTCATGGGATAGTTGTCTACACTGGCCACGACACCAAGCTGATGCAGAATTCCACAAGCCCACCACTTAAACTCTCCAATGTGGAACGGATTACAAATGTACAAATTCTGATTTTATTTTGCATCTTAATTGCCATGTCTCTTGTGTGTTCTGTGGGCTCAGCCATTTGGAACCGAAGGCATTCCGGGAAAGACTGGTACCTCCATCTACACTATGGTGGCGCTAGTAACTTTGGACTGAACTTCCTGACTTTCATTATCCTTTTCAACAACCTCATTCCCATCAGCTTGCTGGTCACATTAGAAGTGGTGAAGTTTACTCAGGCATACTTCATAAATTGGGATCTTGACATGCATTATGAGCCCACAGACACCGCAGCAATGGCTCGGACATCTAATCTGAATGAGGAACTTGGCCAGGTTAAATACATATTTTCTGACAAAACTGGGACCCTGACATGCAATGTGATGCAGTTCAAGAAGTGCACCATCGCGGGCGTGGCCTATGGGCAGAGCTCACAGTTTGGAGATGAAAAAACCTTTAATGACCCGTCGTTGCTGGACAATCTCCAGAATAACCACCCAACCGCACCTATCATCTGTGAATTTCTCACAATGATGGCCGTCTGCCACACAGCTGTACCGGAGAGAGAAGGGGACAAGATCATTTATCAGGCTGCATCGCCAGATGAGGGTGCACTGGTCAGAGCCGCCAAGCAGTTGAATTTTGTCTTCACTGGAAGAACTCCTGACTCTGTCATCATAGATTCACTGGGGCAGGAAGAAAGATATGAATTGCTCAATGTCCTAGAGTTCACCAGTGCTAGGAAGAGGATGTCGGTGGTGGTTCGCACTCCATCCGGGAAGTTACGGCTCTACTGCAAAGGAGCTGACACAGTAATTTATGAACGACTTGCAGAGACCTCAAAGTACAAAGAAATCACCCTAAAACACTTGGAACAGTTTGCTACAGAAGGGCTGAGGACTTTGTGTTTTGCTGTGGCTGAGATTTCTGAGAGCGACTTCGAGGAGTGGCGGGCCGTCTACCACCGCGCATCCACGTCGGTACAGAACAGGCTGCTGAAGCTGGAGGAGAGCTACGAACTAATTGAAAAGAATCTTCAGCTACTTGGAGCTACAGCCATTGAGGATAAATTGCAGGACCAAGTGCCTGAAACCATAGAAACGCTAATGAAGGCTGACATCAAAATATGGATCCTTACTGGGGACAAGCAAGAAACTGCCATTAATATTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGACCAAGTGCCTGAAACC
60.18
GAAGGACAGTGTCAGCAGGT
59.61
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGACCAAGTGCCTGAAACC
60.18
GGGCTCACTTGACGAGAGAA
59.4
177
PCR template sequence:
TTGCAGGACCAAGTGCCTGAAACCATAGAAACGCTAATGAAGGCTGACATCAAAATATGGATCCTTACTGGGGACAAGCAAGAAACTGCCATTAATATTGGTAAATGTTGGAGATATAGTTATAATAAAAGGCAAAGAGTATATACCTGCTGACACTGTCCTTCTCTCGTCAAGTGAGCCCCAGGCCATGTGCTACATCG
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-23b-3p(1), mmu-miR-199a-5p(1), mmu-miR-216a-5p(1), mmu-miR-217-5p(1), mmu-miR-23a-3p(1), mmu-miR-214-3p(1), mmu-miR-384-3p(1), mmu-miR-539-5p(1), mmu-miR-3065-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
GCCATTAATATTGGTAAATGTTGGAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP8A1_1591_ORF_1
1.0369
0.181584832
0.9998139
1557
ORF sequence:
ATGTGCTACATCGAGACATCCAACTTAGATGGTGAAACAAACTTGAAAATTAGACAAGGCTTACCGGCAACATCGGATATCAAAGACATTGACAGTTTGATGAGAATTTCTGGCAGAATCGAGTGTGAAAGTCCAAACCGACATCTCTACGATTTTGTTGGGAACATAAGGCTTGATGGCCATGGCACCGTTCCCCTGGGGGCAGACCAGATCCTTCTCCGAGGAGCTCAGTTAAGAAATACCCAGTGGGTTCATGGGATAGTTGTCTACACTGGCCACGACACCAAGCTGATGCAGAATTCCACAAGCCCACCACTTAAACTCTCCAATGTGGAACGGATTACAAATGTACAAATTCTGATTTTATTTTGCATCTTAATTGCCATGTCTCTTGTGTGTTCTGTGGGCTCAGCCATTTGGAACCGAAGGCATTCCGGGAAAGACTGGTACCTCCATCTACACTATGGTGGCGCTAGTAACTTTGGACTGAACTTCCTGACTTTCATTATCCTTTTCAACAACCTCATTCCCATCAGCTTGCTGGTCACATTAGAAGTGGTGAAGTTTACTCAGGCATACTTCATAAATTGGGATCTTGACATGCATTATGAGCCCACAGACACCGCAGCAATGGCTCGGACATCTAATCTGAATGAGGAACTTGGCCAGGTTAAATACATATTTTCTGACAAAACTGGGACCCTGACATGCAATGTGATGCAGTTCAAGAAGTGCACCATCGCGGGCGTGGCCTATGGGCAGAGCTCACAGTTTGGAGATGAAAAAACCTTTAATGACCCGTCGTTGCTGGACAATCTCCAGAATAACCACCCAACCGCACCTATCATCTGTGAATTTCTCACAATGATGGCCGTCTGCCACACAGCTGTACCGGAGAGAGAAGGGGACAAGATCATTTATCAGGCTGCATCGCCAGATGAGGGTGCACTGGTCAGAGCCGCCAAGCAGTTGAATTTTGTCTTCACTGGAAGAACTCCTGACTCTGTCATCATAGATTCACTGGGGCAGGAAGAAAGATATGAATTGCTCAATGTCCTAGAGTTCACCAGTGCTAGGAAGAGGATGTCGGTGGTGGTTCGCACTCCATCCGGGAAGTTACGGCTCTACTGCAAAGGAGCTGACACAGTAATTTATGAACGACTTGCAGAGACCTCAAAGTACAAAGAAATCACCCTAAAACACTTGGAACAGTTTGCTACAGAAGGGCTGAGGACTTTGTGTTTTGCTGTGGCTGAGATTTCTGAGAGCGACTTCGAGGAGTGGCGGGCCGTCTACCACCGCGCATCCACGTCGGTACAGAACAGGCTGCTGAAGCTGGAGGAGAGCTACGAACTAATTGAAAAGAATCTTCAGCTACTTGGAGCTACAGCCATTGAGGATAAATTGCAGGACCAAGTGCCTGAAACCATAGAAACGCTAATGAAGGCTGACATCAAAATATGGATCCTTACTGGGGACAAGCAAGAAACTGCCATTAATATTGGTAAATGTTGGAGATATAGTTATAATAAAAGGCAAAGAGTATATACCTGCTGA
Peptide sequence:
MCYIETSNLDGETNLKIRQGLPATSDIKDIDSLMRISGRIECESPNRHLYDFVGNIRLDGHGTVPLGADQILLRGAQLRNTQWVHGIVVYTGHDTKLMQNSTSPPLKLSNVERITNVQILILFCILIAMSLVCSVGSAIWNRRHSGKDWYLHLHYGGASNFGLNFLTFIILFNNLIPISLLVTLEVVKFTQAYFINWDLDMHYEPTDTAAMARTSNLNEELGQVKYIFSDKTGTLTCNVMQFKKCTIAGVAYGQSSQFGDEKTFNDPSLLDNLQNNHPTAPIICEFLTMMAVCHTAVPEREGDKIIYQAASPDEGALVRAAKQLNFVFTGRTPDSVIIDSLGQEERYELLNVLEFTSARKRMSVVVRTPSGKLRLYCKGADTVIYERLAETSKYKEITLKHLEQFATEGLRTLCFAVAEISESDFEEWRAVYHRASTSVQNRLLKLEESYELIEKNLQLLGATAIEDKLQDQVPETIETLMKADIKIWILTGDKQETAINIGKCWRYSYNKRQRVYTC
IRESfinder result
IRESfinder score
0.502063923
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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