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mmu_circZranb3_420
Basic information of circular RNA
PanCircBase ID:
mmu_circZranb3_420
mm39_Chr. Position ID:
chr1|127920536|127927197|-
Gene name:
Zranb3
Transcript:
ENSMUST00000086614.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
11,10,9
Exon/intron offsets:
0,4053,6541
Genomic length:
6661
Exon/intron sizes in nt:
18,01,20,120
Flanking exon/introns:
chr1:127915883-127920536|chr1:127927197-127943779
Splice length:
420
Other database IDs:
circAtlas: mmu-Zranb3_0012
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GCAGGTGCAGTGAAGGACTATATTAAGATGCTGCTTCAGAACGACTCCCTTAAATTTCTGGTCTTTGCGCACCATTTAAGTATGCTCCAGGCTTGCACAGAAGCAGTCATCGAAAGCAAGTCTCGTTACATCAGGATAGATGGAAGTGTTCCATCTTCAGAAAGAATTCATCTGGTTAATCAATTTCAGAAGGACCCCGATACTCGTGTGGCTATCCTGAGCATTCAGGCTGCTGGCCAGGGTTTAACGTTTACTGCTGCGAGTCACGTTGTCTTTGCTGAGTTGTACTGGGACCCTGGACATATCAAACAAGCAGAAGACCGAGCTCACCGAATCGGACAGTGCAGTTCTGTGAATATTCACTACCTTATTGCAAATGGTACTCTGGACAGCCTAATGTGGGCAATGCTGAATCGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGACAGTGCAGTTCTGTGA
60.25
AAATGGTGCGCAAAGACCAG
59.69
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGGACAGTGCAGTTCTGTG
60.25
AAATGGTGCGCAAAGACCAG
59.69
163
PCR template sequence:
CCGAGCTCACCGAATCGGACAGTGCAGTTCTGTGAATATTCACTACCTTATTGCAAATGGTACTCTGGACAGCCTAATGTGGGCAATGCTGAATCGAAAGGCAGGTGCAGTGAAGGACTATATTAAGATGCTGCTTCAGAACGACTCCCTTAAATTTCTGGTCTTTGCGCACCATTTAAGTATGCTCCAGGCTTGCACAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
GCTGAATCGAAAGGCAGGTGCAGTGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZRANB3_420_ORF_1
1.014
0.17241927
0.96063628
813
ORF sequence:
ATGCTGCTTCAGAACGACTCCCTTAAATTTCTGGTCTTTGCGCACCATTTAAGTATGCTCCAGGCTTGCACAGAAGCAGTCATCGAAAGCAAGTCTCGTTACATCAGGATAGATGGAAGTGTTCCATCTTCAGAAAGAATTCATCTGGTTAATCAATTTCAGAAGGACCCCGATACTCGTGTGGCTATCCTGAGCATTCAGGCTGCTGGCCAGGGTTTAACGTTTACTGCTGCGAGTCACGTTGTCTTTGCTGAGTTGTACTGGGACCCTGGACATATCAAACAAGCAGAAGACCGAGCTCACCGAATCGGACAGTGCAGTTCTGTGAATATTCACTACCTTATTGCAAATGGTACTCTGGACAGCCTAATGTGGGCAATGCTGAATCGAAAGGCAGGTGCAGTGAAGGACTATATTAAGATGCTGCTTCAGAACGACTCCCTTAAATTTCTGGTCTTTGCGCACCATTTAAGTATGCTCCAGGCTTGCACAGAAGCAGTCATCGAAAGCAAGTCTCGTTACATCAGGATAGATGGAAGTGTTCCATCTTCAGAAAGAATTCATCTGGTTAATCAATTTCAGAAGGACCCCGATACTCGTGTGGCTATCCTGAGCATTCAGGCTGCTGGCCAGGGTTTAACGTTTACTGCTGCGAGTCACGTTGTCTTTGCTGAGTTGTACTGGGACCCTGGACATATCAAACAAGCAGAAGACCGAGCTCACCGAATCGGACAGTGCAGTTCTGTGAATATTCACTACCTTATTGCAAATGGTACTCTGGACAGCCTAATGTGGGCAATGCTGAATCGAAAG
Peptide sequence:
MLLQNDSLKFLVFAHHLSMLQACTEAVIESKSRYIRIDGSVPSSERIHLVNQFQKDPDTRVAILSIQAAGQGLTFTAASHVVFAELYWDPGHIKQAEDRAHRIGQCSSVNIHYLIANGTLDSLMWAMLNRKAGAVKDYIKMLLQNDSLKFLVFAHHLSMLQACTEAVIESKSRYIRIDGSVPSSERIHLVNQFQKDPDTRVAILSIQAAGQGLTFTAASHVVFAELYWDPGHIKQAEDRAHRIGQCSSVNIHYLIANGTLDSLMWAMLNRK
IRESfinder result
IRESfinder score
0.706336511
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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