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mmu_circAtp9a_1112
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp9a_1112
mm39_Chr. Position ID:
chr2|168516711|168552896|-
Gene name:
Atp9a
Transcript:
ENSMUST00000109175.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,409,1350,7184,8921,12549,14507,16174,30331,31403,36040
Genomic length:
36185
Exon/intron sizes in nt:
143,161,77,76,81,95,52,59,109,114,145
Flanking exon/introns:
chr2:168515509-168516711|chr2:168552896-168575940
Splice length:
1112
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGCTGTGAGTGGCTGAGATGTTGCGGTGGAGGGGAGCCCAGGCCCCGTACTGTCTGGTTGGGACACCCCGAGAAGAGGGACCAGCGGTACCCTCGAAATGTCATCAACAACCAGAAGTACAATTTCTTCACATTTCTTCCTGGGGTGTTGTTCAGCCAGTTCAGATACTTCTTCAACTTCTACTTCCTGCTTCTCGCCTGCTCGCAGTTCGTCCCAGAGATGAGGCTTGGCGCCCTGTACACCTACTGGGTTCCTCTGGGCTTCGTGCTGGCTGTCACCATCATCCGTGAGGCAGTAGAGGAGATCCGATGTTATGTGCGTGACAAGGAGATGAACTCCCAGGTCTACAGCCGGCTCACGTCACGAGGGACCGTGAAGGTGAAGAGTTCAAACATCCAGGTGGGAGACCTCATCCTTGTGGAAAAGAACCAGCGGGTCCCTGCTGACATGATCTTCCTGAGGACGTCAGAGAAAAACGGCTCTTGCTTCTTGCGCACGGATCAGCTGGATGGAGAGACAGACTGGAAGCTTCGGCTCCCGGTGGCCTGCACACAGAGGCTTCCCACGGCTGCTGACCTCCTGCAGATTCGGTCCTATGTGTACGCTGAAGAGCCCAACATCGACATTCACAACTTCCTGGGGACTTTCACCAGGGAAGACAGTGACCCTCCGATCAGTGAGAGTCTGAGCATTGAGAACACGCTGTGGGCCGGCACCGTCATAGCATCAGGCACTGTTGTAGGCGTTGTTCTCTACACTGGCAGAGAACTGCGGAGTGTCATGAATACTTCCGACCCCAGAAGTAAGATTGGCCTGTTCGACCTGGAGGTGAACTGCCTCACCAAGATCCTGTTTGGTGCGCTGGTGGTGGTGTCGCTGGTCATGGTGGCCCTGCAGCACTTTGCCGGCCGCTGGTACCTGCAGATCATCCGCTTCCTGCTCCTGTTTTCCAACATCATTCCTATCAGCTTGCGTGTGAACTTGGACATGGGCAAGATCGTGTACAGCTGGGTGATCCGCAGGGATTCCAAAATCCCCGGGACCGTGGTTCGTTCCAGCACAATTCCTGAGCAGCTGGGCAGGATTTCGTACTTGCTCACAGACAAGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTCCAAAATCCCCGGGACC
60.03
GTCCCAACCAGACAGTACGG
60.04
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTCCAAAATCCCCGGGACC
60.03
TGTCCCAACCAGACAGTACG
59.32
153
PCR template sequence:
GTGATCCGCAGGGATTCCAAAATCCCCGGGACCGTGGTTCGTTCCAGCACAATTCCTGAGCAGCTGGGCAGGATTTCGTACTTGCTCACAGACAAGACAGGTGCTGTGAGTGGCTGAGATGTTGCGGTGGAGGGGAGCCCAGGCCCCGTACTGTCTGGTTGGGACACCCCGAGAAGAGGGACCAGCGGTACCCTCGAAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-1a-3p(1), mmu-miR-199a-5p(1), mmu-miR-206-3p(1), mmu-miR-106b-5p(1), mmu-miR-214-3p(1), mmu-miR-382-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAGACAAGACAGGTGCTGTGAGTGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP9A_1112_ORF_1
1.2003
0.481523013
0.995787276
909
ORF sequence:
ATGAGGCTTGGCGCCCTGTACACCTACTGGGTTCCTCTGGGCTTCGTGCTGGCTGTCACCATCATCCGTGAGGCAGTAGAGGAGATCCGATGTTATGTGCGTGACAAGGAGATGAACTCCCAGGTCTACAGCCGGCTCACGTCACGAGGGACCGTGAAGGTGAAGAGTTCAAACATCCAGGTGGGAGACCTCATCCTTGTGGAAAAGAACCAGCGGGTCCCTGCTGACATGATCTTCCTGAGGACGTCAGAGAAAAACGGCTCTTGCTTCTTGCGCACGGATCAGCTGGATGGAGAGACAGACTGGAAGCTTCGGCTCCCGGTGGCCTGCACACAGAGGCTTCCCACGGCTGCTGACCTCCTGCAGATTCGGTCCTATGTGTACGCTGAAGAGCCCAACATCGACATTCACAACTTCCTGGGGACTTTCACCAGGGAAGACAGTGACCCTCCGATCAGTGAGAGTCTGAGCATTGAGAACACGCTGTGGGCCGGCACCGTCATAGCATCAGGCACTGTTGTAGGCGTTGTTCTCTACACTGGCAGAGAACTGCGGAGTGTCATGAATACTTCCGACCCCAGAAGTAAGATTGGCCTGTTCGACCTGGAGGTGAACTGCCTCACCAAGATCCTGTTTGGTGCGCTGGTGGTGGTGTCGCTGGTCATGGTGGCCCTGCAGCACTTTGCCGGCCGCTGGTACCTGCAGATCATCCGCTTCCTGCTCCTGTTTTCCAACATCATTCCTATCAGCTTGCGTGTGAACTTGGACATGGGCAAGATCGTGTACAGCTGGGTGATCCGCAGGGATTCCAAAATCCCCGGGACCGTGGTTCGTTCCAGCACAATTCCTGAGCAGCTGGGCAGGATTTCGTACTTGCTCACAGACAAGACAGGTGCTGTGAGTGGCTGA
Peptide sequence:
MRLGALYTYWVPLGFVLAVTIIREAVEEIRCYVRDKEMNSQVYSRLTSRGTVKVKSSNIQVGDLILVEKNQRVPADMIFLRTSEKNGSCFLRTDQLDGETDWKLRLPVACTQRLPTAADLLQIRSYVYAEEPNIDIHNFLGTFTREDSDPPISESLSIENTLWAGTVIASGTVVGVVLYTGRELRSVMNTSDPRSKIGLFDLEVNCLTKILFGALVVVSLVMVALQHFAGRWYLQIIRFLLLFSNIIPISLRVNLDMGKIVYSWVIRRDSKIPGTVVRSSTIPEQLGRISYLLTDKTGAVSG
IRESfinder result
IRESfinder score
0.532894044
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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