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mmu_ciZer1_775
Basic information of circular RNA
PanCircBase ID:
mmu_ciZer1_775
mm39_Chr. Position ID:
chr2|29991965|29992740|-
Gene name:
Zer1
Transcript:
ENSMUST00000044751.14
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
12
Exon/intron offsets:
0
Genomic length:
775
Exon/intron sizes in nt:
775
Flanking exon/introns:
chr2:29991965-29992740
Splice length:
775
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTGGTACTTCCTGGGCCACCAGAATACTCAGAACAATTGTGTACACTGTGAACACTGTGCTCTGTCCAGTTTCTGTTCTTGATACTGCCTTCTCTCTATATTGTGCTTTTTAAAAAAAATTATTTACTTTATGTATATGAGTACACTGTAGTTTTTTTAAGACACCCCAGAATAGGGCATCAGATCCCATTACAGATGGTTGTGAGTTGCTATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCCTATAATGTGCTTTTGTTTTCTTTTGATCCTGTTTTTCATTCTGTGTATGTGAGGGATGGGTATGTGCCCATGAGTGCAGCTGCCCATAAAGGCTAAGGCTCTGGGTCTTTTCTCAAGAGCTGAAGGGCACAAGTGATTGCAAGCCATCATGGGTACTGGGACCTAGCTCCAGGATGAAAGAGCAGTGTTTTAGTCTTTCAGCCTACCACAGATGGCAGTAATGTTACATCCTTTTCTCTGAAGGACTGTGTATACCAAGTGGCTAGATGTTGTGACATGAGCTTGGGAAATGAAGCAGGAATCTTGACCAACAACAAACTCCAAGCCAGCCTGACTCAAAAGTAGAAAAAAAAGAGCCAAGTGATTTTCAGCTGAGCAGTGGTGCAGGCTTGTAACCCTGGCAACCACGAGGCTGAAGCAGGAGGATGTAGAGTAGTGGCCGCCCACGAGCACACGCATGATGGATTTTCTCTCTCTTGGTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGCTGAAGCAGGAGGATG
60.18
TGGACAGAGCACAGTGTTCA
59.17
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGCTGAAGCAGGAGGATG
60.18
ACTGGACAGAGCACAGTGTT
59.17
146
PCR template sequence:
GCAGGCTTGTAACCCTGGCAACCACGAGGCTGAAGCAGGAGGATGTAGAGTAGTGGCCGCCCACGAGCACACGCATGATGGATTTTCTCTCTCTTGGTAGGTTGGTACTTCCTGGGCCACCAGAATACTCAGAACAATTGTGTACACTGTGAACACTGTGCTCTGTCCAGTTTCTGTTCTTGATACTGCCTTCTCTCTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-135a-5p(1), mmu-miR-185-5p(1), mmu-miR-139-5p(1), mmu-miR-128-3p(1), mmu-miR-673-5p(1), mmu-miR-3087-3p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
TCTCTCTTGGTAGGTTGGTACTTCCT
siRNA sets
AGTACCAACCTACCAAGAG,AAGTACCAACCTACCAAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIZER1_775_ORF_1
0.6307
-0.388459818
0.005871034
78
ORF sequence:
ATGATGGATTTTCTCTCTCTTGGTAGGTTGGTACTTCCTGGGCCACCAGAATACTCAGAACAATTGTGTACACTGTGA
Peptide sequence:
MMDFLSLGRLVLPGPPEYSEQLCTL
IRESfinder result
IRESfinder score
0.809338456
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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