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mmu_circAtp13a5_1168
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp13a5_1168
mm39_Chr. Position ID:
chr16|29079668|29117072|-
Gene name:
Atp13a5
Transcript:
ENSMUST00000075806.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
25,24,23,22,21,20,19,18,17,16,15
Exon/intron offsets:
0,2529,6027,14487,16733,18246,20079,21093,32570,36528,37317
Genomic length:
37404
Exon/intron sizes in nt:
73,97,110,43,80,117,161,125,118,157,87
Flanking exon/introns:
chr16:29070177-29079668|chr16:29117072-29127021
Splice length:
1168
Other database IDs:
circAtlas: mmu-Atp13a5_0004
Human Ortholog IDs:
Mature spliced Sequence:
AATATGGAAGATAGCCAAGTGGCCTCCTGCAAATTTGGCATGGCAGATTCAAGCACAGTAATAAAACCAGGACCGAAAGCCAGCCAGAGTCCTGTGGACAGCATCACCATCTTGCGCCAGTTTCCATTTTCCTCAGGCCTGCAAAGGATGTCTGTGATTGCTCAGCTGGCTGGTGACCTTCACCTCCACGTCTACATGAAGGGAGCCCCAGAAATGGTGGCCAGGTTCTGCCGCTCTGAAACGGTGCCTAAGAACTTCTCGCAGGAGCTGAGGAATTACACAGTGCAAGGCTTCCGAGTCATTGCTCTTGCCCACAAAACCCTAAAGATGGAGAGGCTTTCAGATATGGACCATCTAGCAAGGGAGAAAGTGGAGTCTGAGTTGGCCTTTCTGGGACTTCTCATAATGGAGAATCGCTTGAAAAAGGAAACAAGGCCAGTGCTGAAGGAGCTGAGTGAGGCCCGCATCAGGACCGTGATGGTTACAGGTGACAATCTTCAAACTGCCATCACTGTTGCTAAAAATTCTGAAATGATTCCTGTGGGCAGCCAGGTCGTCATTGTCGAGGCTAATGAGCCAGGAGACCTTGTTCCTGCTTCTGTGACCTGGCAGCTGGTGGGGACCCAAGAGCCAGGCTCTGGGAAGAAGGACACCTACATTGACATCGGAAACAGCTCTGTACCTGCTGGGAAAGGTTACCATTTTGCAATGAGTGGGAAGTCATACCAAGTGTTATTTCATCATTTCTACAGCATGCTGCCACAAATTCTGGTTAATGGAACCATTTTTGCAAGAATGTCTCCTGGGCAGAAGTCAAGCCTCGTGGAAGAGTTTCAGAAATTAAATTATTATGTGGGCATGTGTGGAGATGGAGCCAATGACTGTGGGGCTTTGAAAATGGCTCATGCTGGCATCTCACTATCAGAACAGGAAGCATCCGTGGCATCTCCCTTCACCTCGAAAACAGCCAATATCGAGTGTGTGCCTCATCTCATCAGGGAGGGCCGGGCTGCTCTGGTCTCATCCTTCGGTGTATTTAAATACCTGACTATGTACGGCATCATCCAGTTTATTGGAACATCACTTCTGTACTGGCAACTACAGCTCTTTGGTAACTACCAGTACCTCCTGCAAGATGTGGCCATCACGCTGATGGTCAGCTTAACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TACCTCCTGCAAGATGTGGC
59.75
CAGGACTCTGGCTGGCTTTC
60.68
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCAACTACAGCTCTTTGGT
59.86
TGGCTTTCGGTCCTGGTTTT
60.11
158
PCR template sequence:
TTTATTGGAACATCACTTCTGTACTGGCAACTACAGCTCTTTGGTAACTACCAGTACCTCCTGCAAGATGTGGCCATCACGCTGATGGTCAGCTTAACAAAATATGGAAGATAGCCAAGTGGCCTCCTGCAAATTTGGCATGGCAGATTCAAGCACAGTAATAAAACCAGGACCGAAAGCCAGCCAGAGTCCTGTGGACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-149-5p(3), mmu-miR-103-3p(1), mmu-miR-335-5p(1), mmu-miR-143-3p(1), mmu-miR-214-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-22-3p(1), mmu-miR-218-5p(1), mmu-miR-107-3p(1), mmu-miR-369-3p(1), mmu-miR-670-5p(1), mmu-miR-697(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCAGCTTAACAAAATATGGAAGATA
siRNA sets
TTCCATATTTTGTTAAGCT, CATATTTTGTTAAGCTGAC, TATCTTCCATATTTTGTTA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP13A5_1168_ORF_1
1.0957
0.225513965
0.997913114
1179
ORF sequence:
ATGGAAGATAGCCAAGTGGCCTCCTGCAAATTTGGCATGGCAGATTCAAGCACAGTAATAAAACCAGGACCGAAAGCCAGCCAGAGTCCTGTGGACAGCATCACCATCTTGCGCCAGTTTCCATTTTCCTCAGGCCTGCAAAGGATGTCTGTGATTGCTCAGCTGGCTGGTGACCTTCACCTCCACGTCTACATGAAGGGAGCCCCAGAAATGGTGGCCAGGTTCTGCCGCTCTGAAACGGTGCCTAAGAACTTCTCGCAGGAGCTGAGGAATTACACAGTGCAAGGCTTCCGAGTCATTGCTCTTGCCCACAAAACCCTAAAGATGGAGAGGCTTTCAGATATGGACCATCTAGCAAGGGAGAAAGTGGAGTCTGAGTTGGCCTTTCTGGGACTTCTCATAATGGAGAATCGCTTGAAAAAGGAAACAAGGCCAGTGCTGAAGGAGCTGAGTGAGGCCCGCATCAGGACCGTGATGGTTACAGGTGACAATCTTCAAACTGCCATCACTGTTGCTAAAAATTCTGAAATGATTCCTGTGGGCAGCCAGGTCGTCATTGTCGAGGCTAATGAGCCAGGAGACCTTGTTCCTGCTTCTGTGACCTGGCAGCTGGTGGGGACCCAAGAGCCAGGCTCTGGGAAGAAGGACACCTACATTGACATCGGAAACAGCTCTGTACCTGCTGGGAAAGGTTACCATTTTGCAATGAGTGGGAAGTCATACCAAGTGTTATTTCATCATTTCTACAGCATGCTGCCACAAATTCTGGTTAATGGAACCATTTTTGCAAGAATGTCTCCTGGGCAGAAGTCAAGCCTCGTGGAAGAGTTTCAGAAATTAAATTATTATGTGGGCATGTGTGGAGATGGAGCCAATGACTGTGGGGCTTTGAAAATGGCTCATGCTGGCATCTCACTATCAGAACAGGAAGCATCCGTGGCATCTCCCTTCACCTCGAAAACAGCCAATATCGAGTGTGTGCCTCATCTCATCAGGGAGGGCCGGGCTGCTCTGGTCTCATCCTTCGGTGTATTTAAATACCTGACTATGTACGGCATCATCCAGTTTATTGGAACATCACTTCTGTACTGGCAACTACAGCTCTTTGGTAACTACCAGTACCTCCTGCAAGATGTGGCCATCACGCTGATGGTCAGCTTAACAAAATATGGAAGATAG
Peptide sequence:
MEDSQVASCKFGMADSSTVIKPGPKASQSPVDSITILRQFPFSSGLQRMSVIAQLAGDLHLHVYMKGAPEMVARFCRSETVPKNFSQELRNYTVQGFRVIALAHKTLKMERLSDMDHLAREKVESELAFLGLLIMENRLKKETRPVLKELSEARIRTVMVTGDNLQTAITVAKNSEMIPVGSQVVIVEANEPGDLVPASVTWQLVGTQEPGSGKKDTYIDIGNSSVPAGKGYHFAMSGKSYQVLFHHFYSMLPQILVNGTIFARMSPGQKSSLVEEFQKLNYYVGMCGDGANDCGALKMAHAGISLSEQEASVASPFTSKTANIECVPHLIREGRAALVSSFGVFKYLTMYGIIQFIGTSLLYWQLQLFGNYQYLLQDVAITLMVSLTKYGR
IRESfinder result
IRESfinder score
0.554932779
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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