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mmu_circMipol1_538
Basic information of circular RNA
PanCircBase ID:
mmu_circMipol1_538
mm39_Chr. Position ID:
chr12|57372309|57461196|+
Gene name:
Mipol1
Transcript:
ENSMUST00000145003.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
5,6,7,8,9
Exon/intron offsets:
0,6472,6765,38603,88792
Genomic length:
88887
Exon/intron sizes in nt:
130,34,171,108,95
Flanking exon/introns:
chr12:57354250-57372309|chr12:57461196-57503738
Splice length:
538
Other database IDs:
circBase: mmu_circ_0004101, CIRCpedia: MMU_CIRCpedia_215852, circAtlas: mmu-Mipol1_0012
circAtlas: hsa-MIPOL1_0009, CIRCpedia: HSA_CIRCpedia_12083
Human Ortholog IDs:
Mature spliced Sequence:
CTTTGGTTGAAGAAGTGTATTTTGCACAGCGAGAACGTGATGAAGCTATTATGTGCCGACTGCAGTTAGCCCTCAAGGAGAGAGACGAAGCCATTGCACATGTGAAACATATGGAAATGTCACTAAAAATGCTAGAAAATATTAACCCTGAAGAAAATGACATGACATTACAGGAATTACTGAACAGAATAAACAATGCAGACACTGGGATAGCTATTCAGAAGAATGGAGCTGTGATTGTGGATACAATCTACAAGACCAAGGAATGTAGGAAGAGAATAACCGCAGAAGAAATGAGTGCAGTCCTAGAGGAGCGGGATGCGGCTTTGTCTCAGTGCAAACGGCTGCACCAGGAGCTTCATCGTCTGAAAGAGCAGAACCAGACTTCAGCAAACAACACGAGACGTCCGACGGCTGAAAACAATCAGGAACGTGCTCTGAAGGCAAAATTATTGTCAATGCAGCAAGCCAGAGAAACTGCAGTTGAACAGTACAAAAGGCTGGAAGAAGAAATACAGACATTACGAGTTTACTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAATGCAGCAAGCCAGAGA
59.96
TTGAGGGCTAACTGCAGTCG
60.04
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCAATGCAGCAAGCCAGAG
59.83
TTGAGGGCTAACTGCAGTCG
60.04
160
PCR template sequence:
TGAAGGCAAAATTATTGTCAATGCAGCAAGCCAGAGAAACTGCAGTTGAACAGTACAAAAGGCTGGAAGAAGAAATACAGACATTACGAGTTTACTACAGCTTTGGTTGAAGAAGTGTATTTTGCACAGCGAGAACGTGATGAAGCTATTATGTGCCGACTGCAGTTAGCCCTCAAGGAGAGAGACGAAGCCATTGCACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-135a-5p(1), mmu-miR-33-5p(1), mmu-miR-136-5p(1), mmu-miR-301b-3p(1), mmu-miR-673-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GAGTTTACTACAGCTTTGGTTGAAGA
siRNA sets
CTTCAACCAAAGCTGTAGT,TTCAACCAAAGCTGTAGTA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMIPOL1_538_ORF_1
1.069
0.219226311
0.770254607
498
ORF sequence:
ATGTGCCGACTGCAGTTAGCCCTCAAGGAGAGAGACGAAGCCATTGCACATGTGAAACATATGGAAATGTCACTAAAAATGCTAGAAAATATTAACCCTGAAGAAAATGACATGACATTACAGGAATTACTGAACAGAATAAACAATGCAGACACTGGGATAGCTATTCAGAAGAATGGAGCTGTGATTGTGGATACAATCTACAAGACCAAGGAATGTAGGAAGAGAATAACCGCAGAAGAAATGAGTGCAGTCCTAGAGGAGCGGGATGCGGCTTTGTCTCAGTGCAAACGGCTGCACCAGGAGCTTCATCGTCTGAAAGAGCAGAACCAGACTTCAGCAAACAACACGAGACGTCCGACGGCTGAAAACAATCAGGAACGTGCTCTGAAGGCAAAATTATTGTCAATGCAGCAAGCCAGAGAAACTGCAGTTGAACAGTACAAAAGGCTGGAAGAAGAAATACAGACATTACGAGTTTACTACAGCTTTGGTTGA
Peptide sequence:
MCRLQLALKERDEAIAHVKHMEMSLKMLENINPEENDMTLQELLNRINNADTGIAIQKNGAVIVDTIYKTKECRKRITAEEMSAVLEERDAALSQCKRLHQELHRLKEQNQTSANNTRRPTAENNQERALKAKLLSMQQARETAVEQYKRLEEEIQTLRVYYSFG
IRESfinder result
IRESfinder score
0.344148046
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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