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mmu_circAtxn10_337
Basic information of circular RNA
PanCircBase ID:
mmu_circAtxn10_337
mm39_Chr. Position ID:
chr15|85259522|85267185|+
Gene name:
Atxn10
Transcript:
ENSMUST00000163242.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,5,6
Exon/intron offsets:
0,1222,7582
Genomic length:
7663
Exon/intron sizes in nt:
97,159,81
Flanking exon/introns:
chr15:85249560-85259522|chr15:85267185-85271191
Splice length:
337
Other database IDs:
circBase: hsa_circ_0003303, circAtlas: hsa-ATXN10_0007, CIRCpedia: HSA_CIRCpedia_37040
Human Ortholog IDs:
Mature spliced Sequence:
CTTTTCGATGTGGCCTGCAGTTTTTAGGCAACGTTGCCTCACGAAATGAAGAATCCCAGTCCATTGTTTGGGTCCACGCCTTCCCAGAACTCTTCATGTCTTGCTTGAACCATCCAGACAAAAAGATTGTTGCCTACTGTTCCATGATTCTGTTCACATCTCTTAATGCTGAAAGGATGAAAGACCTGGAAGAGAACCTCAATATTGCAATTAACGTCATAGAAGCTCACCAAAAGCACCCGGCGTCAGAGTGGCCGTTCTTGATTATTTCAGACCACTTTCTGAAAAGCCCGGAACTGGTGGAAGCTATGTATGGCAAACTCAGCAACCAGGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGAAAAGCCCGGAACTGG
60.25
AAGAGTTCTGGGAAGGCGTG
59.96
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCAGAGTGGCCGTTCTTGA
59.97
AAGGCGTGGACCCAAACAAT
60.47
175
PCR template sequence:
ACCCGGCGTCAGAGTGGCCGTTCTTGATTATTTCAGACCACTTTCTGAAAAGCCCGGAACTGGTGGAAGCTATGTATGGCAAACTCAGCAACCAGGAAAGCTTTTCGATGTGGCCTGCAGTTTTTAGGCAACGTTGCCTCACGAAATGAAGAATCCCAGTCCATTGTTTGGGTCCACGCCTTCCCAGAACTCTTCATGTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
GCAACCAGGAAAGCTTTTCGATGTGG
siRNA sets
CATCGAAAAGCTTTCCTGG, ATCGAAAAGCTTTCCTGGT, GAAAAGCTTTCCTGGTTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATXN10_337_ORF_1
0.8907
0.184271224
0.437524152
360
ORF sequence:
ATGGCAAACTCAGCAACCAGGAAAGCTTTTCGATGTGGCCTGCAGTTTTTAGGCAACGTTGCCTCACGAAATGAAGAATCCCAGTCCATTGTTTGGGTCCACGCCTTCCCAGAACTCTTCATGTCTTGCTTGAACCATCCAGACAAAAAGATTGTTGCCTACTGTTCCATGATTCTGTTCACATCTCTTAATGCTGAAAGGATGAAAGACCTGGAAGAGAACCTCAATATTGCAATTAACGTCATAGAAGCTCACCAAAAGCACCCGGCGTCAGAGTGGCCGTTCTTGATTATTTCAGACCACTTTCTGAAAAGCCCGGAACTGGTGGAAGCTATGTATGGCAAACTCAGCAACCAGGAA
Peptide sequence:
MANSATRKAFRCGLQFLGNVASRNEESQSIVWVHAFPELFMSCLNHPDKKIVAYCSMILFTSLNAERMKDLEENLNIAINVIEAHQKHPASEWPFLIISDHFLKSPELVEAMYGKLSNQE
IRESfinder result
IRESfinder score
0.647631181
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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