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mmu_circAtp7a_1043
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp7a_1043
mm39_Chr. Position ID:
chrX|105131943|105142625|+
Gene name:
Atp7a
Transcript:
ENSMUST00000113557.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
5,6,7,8,9,10
Exon/intron offsets:
0,3746,6515,8439,9052,10448
Genomic length:
10682
Exon/intron sizes in nt:
18,01,64,16,27,72,26,200
Flanking exon/introns:
chrX:105130420-105131943|chrX:105142625-105144132
Splice length:
1043
Other database IDs:
circAtlas: hsa-ATP7A_0029
Human Ortholog IDs:
Mature spliced Sequence:
ACATGAAAGAGCCACTGGTAGTGATAGCTCAGCCCTCACTGGAAACACCTCTTTTGCCCTCAAGTAATGAGCTAGAAAATGTGATGACGTCAGTTCAGAACAAGTGTTACATACAGGTCTCTGGGATGACCTGTGCTTCTTGTGTAGCAAACATTGAACGCAATTTAAGACGAGAAGAAGGAATATATTCTGTACTTGTTGCCCTAATGGCTGGCAAGGCAGAAGTAAGATATAACCCAGCTGTTATCCAACCCCGAGTGATAGCAGAGTTTATTCGAGAGCTTGGATTTGGAGCTATGGTGATGGAAAACGCTGGGGAAGGCAACGGCATCTTGGAACTTGTTGTGAGAGGAATGACGTGTGCTTCCTGTGTCCATAAAATTGAATCAACACTCACAAAACACAAAGGGATCTTCTACTGCTCTGTGGCCCTGGCAACTAACAAAGCACATATTAAATATGATCCAGAAATTATTGGTCCCAGAGATATTATCCATACCATCGGAAGCTTAGGCTTTGAAGCTTCTTTGGTCAAGAAAGATCGATCAGCCAACCACTTAGATCATAAACGAGAAATAAAACAATGGAGAGGGTCTTTCCTTGTGAGCCTGTTTTTCTGTATCCCTGTAATGGGACTGATGGTCTATATGATGGTTATGGATCACCACCTTGCAACTCTTCACCATAATCAGAACATGAGTAATGAAGAAATGATCAACATGCATTCTGCTATGTTTCTGGAGCGTCAGATCCTGCCAGGACTGTCCATTATGAATTTGTTGTCCCTTTTATTGTGTCTACCTGTACAGTTTTGTGGCGGCTGGTACTTCTACATTCAGGCTTACAAAGCACTGAAGCATAAGACAGCAAACATGGATGTGCTGATTGTGCTGGCAACCACCATCGCATTTGCCTACTCTCTGGTTATTCTTCTGGTTGCAATGTTTGAGAGAGCCAAAGTGAACCCCATTACCTTCTTTGATACACCTCCTATGCTGTTTGTGTTTATTGCACTAGGACGATGGCTGGAACATATAGCGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGAGCCAAAGTGAACCCCA
59.89
GTGTTTCCAGTGAGGGCTGA
59.89
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGAGCCAAAGTGAACCCCA
59.89
TGTTTCCAGTGAGGGCTGAG
59.6
141
PCR template sequence:
GTTTGAGAGAGCCAAAGTGAACCCCATTACCTTCTTTGATACACCTCCTATGCTGTTTGTGTTTATTGCACTAGGACGATGGCTGGAACATATAGCGAAGACATGAAAGAGCCACTGGTAGTGATAGCTCAGCCCTCACTGGAAACACCTCTTTTGCCCTCAAGTAATGAGCTAGAAAATGTGATGACGTCAGTTCAGAA
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-211-5p(1), mmu-miR-204-5p(1), mmu-miR-130a-3p(1), mmu-miR-136-5p(1), mmu-miR-494-3p(1), mmu-miR-411-3p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-721(1), mmu-miR-297a-5p(1), mmu-miR-301a-3p(1), mmu-miR-3065-5p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACATATAGCGAAGACATGAAAGAGCC
siRNA sets
TTTCATGTCTTCGCTATAT,TTCATGTCTTCGCTATATG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP7A_1043_ORF_1
0.9233
0.091196636
0.988831171
1065
ORF sequence:
ATGGCTGGAACATATAGCGAAGACATGAAAGAGCCACTGGTAGTGATAGCTCAGCCCTCACTGGAAACACCTCTTTTGCCCTCAAGTAATGAGCTAGAAAATGTGATGACGTCAGTTCAGAACAAGTGTTACATACAGGTCTCTGGGATGACCTGTGCTTCTTGTGTAGCAAACATTGAACGCAATTTAAGACGAGAAGAAGGAATATATTCTGTACTTGTTGCCCTAATGGCTGGCAAGGCAGAAGTAAGATATAACCCAGCTGTTATCCAACCCCGAGTGATAGCAGAGTTTATTCGAGAGCTTGGATTTGGAGCTATGGTGATGGAAAACGCTGGGGAAGGCAACGGCATCTTGGAACTTGTTGTGAGAGGAATGACGTGTGCTTCCTGTGTCCATAAAATTGAATCAACACTCACAAAACACAAAGGGATCTTCTACTGCTCTGTGGCCCTGGCAACTAACAAAGCACATATTAAATATGATCCAGAAATTATTGGTCCCAGAGATATTATCCATACCATCGGAAGCTTAGGCTTTGAAGCTTCTTTGGTCAAGAAAGATCGATCAGCCAACCACTTAGATCATAAACGAGAAATAAAACAATGGAGAGGGTCTTTCCTTGTGAGCCTGTTTTTCTGTATCCCTGTAATGGGACTGATGGTCTATATGATGGTTATGGATCACCACCTTGCAACTCTTCACCATAATCAGAACATGAGTAATGAAGAAATGATCAACATGCATTCTGCTATGTTTCTGGAGCGTCAGATCCTGCCAGGACTGTCCATTATGAATTTGTTGTCCCTTTTATTGTGTCTACCTGTACAGTTTTGTGGCGGCTGGTACTTCTACATTCAGGCTTACAAAGCACTGAAGCATAAGACAGCAAACATGGATGTGCTGATTGTGCTGGCAACCACCATCGCATTTGCCTACTCTCTGGTTATTCTTCTGGTTGCAATGTTTGAGAGAGCCAAAGTGAACCCCATTACCTTCTTTGATACACCTCCTATGCTGTTTGTGTTTATTGCACTAGGACGATGGCTGGAACATATAGCGAAG
Peptide sequence:
MAGTYSEDMKEPLVVIAQPSLETPLLPSSNELENVMTSVQNKCYIQVSGMTCASCVANIERNLRREEGIYSVLVALMAGKAEVRYNPAVIQPRVIAEFIRELGFGAMVMENAGEGNGILELVVRGMTCASCVHKIESTLTKHKGIFYCSVALATNKAHIKYDPEIIGPRDIIHTIGSLGFEASLVKKDRSANHLDHKREIKQWRGSFLVSLFFCIPVMGLMVYMMVMDHHLATLHHNQNMSNEEMINMHSAMFLERQILPGLSIMNLLSLLLCLPVQFCGGWYFYIQAYKALKHKTANMDVLIVLATTIAFAYSLVILLVAMFERAKVNPITFFDTPPMLFVFIALGRWLEHIAK
IRESfinder result
IRESfinder score
0.627308954
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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