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mmu_circAtp8b1_410
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp8b1_410
mm39_Chr. Position ID:
chr18|64694650|64697622|-
Gene name:
Atp8b1
Transcript:
ENSMUST00000025482.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
15,14,13
Exon/intron offsets:
0,590,2763
Genomic length:
2972
Exon/intron sizes in nt:
157,44,209
Flanking exon/introns:
chr18:64690100-64694650|chr18:64697622-64701136
Splice length:
410
Other database IDs:
circAtlas: mmu-Atp8b1_0012
circBase: hsa_circ_0047780, circAtlas: hsa-ATP8B1_0013, CIRCpedia: HSA_CIRCpedia_178539
Human Ortholog IDs:
Mature spliced Sequence:
TGTGGAAGTGATCCGTCTGGGACAGAGTCATTTCATCAACTGGGACCTGCAGATGTACTATGCTGAGAAGGACACTCCTGCCAAGGCGAGGACCACCACCTTGAATGAGCAGCTAGGGCAGATTCATTACATCTTCTCTGATAAGACGGGGACACTCACGCAAAATATCATGACCTTCAAAAAGTGCTGCATTAACGGGACTATCTATGGAGACCATCGAGATGCTTCTCAACACAGCCACAGCAAAATCGAGCTAGTGGACTTTAGCTGGAATACATTTGCCGATGGAAAGCTTGCATTTTATGACCATTACCTTATCGAGCAAATACAGTCAGGGAAAGAGCCAGAAGTACGACAGTTCTTCTTTTTGCTTTCGATTTGCCATACGGTCATGGTGGACAGAATTGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGTCAGGGAAAGAGCCAG
59.31
GGCAGGAGTGTCCTTCTCAG
59.75
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGTCAGGGAAAGAGCCAG
59.31
CCTTGGCAGGAGTGTCCTTC
60.32
169
PCR template sequence:
TACCTTATCGAGCAAATACAGTCAGGGAAAGAGCCAGAAGTACGACAGTTCTTCTTTTTGCTTTCGATTTGCCATACGGTCATGGTGGACAGAATTGATGTGTGGAAGTGATCCGTCTGGGACAGAGTCATTTCATCAACTGGGACCTGCAGATGTACTATGCTGAGAAGGACACTCCTGCCAAGGCGAGGACCACCACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-149-5p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GACAGAATTGATGTGTGGAAGTGATC
siRNA sets
CTTCCACACATCAATTCTG, ACTTCCACACATCAATTCT, TTCCACACATCAATTCTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP8B1_410_ORF_1
0.9407
0.237583539
0.530281402
369
ORF sequence:
ATGTACTATGCTGAGAAGGACACTCCTGCCAAGGCGAGGACCACCACCTTGAATGAGCAGCTAGGGCAGATTCATTACATCTTCTCTGATAAGACGGGGACACTCACGCAAAATATCATGACCTTCAAAAAGTGCTGCATTAACGGGACTATCTATGGAGACCATCGAGATGCTTCTCAACACAGCCACAGCAAAATCGAGCTAGTGGACTTTAGCTGGAATACATTTGCCGATGGAAAGCTTGCATTTTATGACCATTACCTTATCGAGCAAATACAGTCAGGGAAAGAGCCAGAAGTACGACAGTTCTTCTTTTTGCTTTCGATTTGCCATACGGTCATGGTGGACAGAATTGATGTGTGGAAGTGA
Peptide sequence:
MYYAEKDTPAKARTTTLNEQLGQIHYIFSDKTGTLTQNIMTFKKCCINGTIYGDHRDASQHSHSKIELVDFSWNTFADGKLAFYDHYLIEQIQSGKEPEVRQFFFLLSICHTVMVDRIDVWK
IRESfinder result
IRESfinder score
0.592637973
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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