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mmu_circEif4a1_553
Basic information of circular RNA
PanCircBase ID:
mmu_circEif4a1_553
mm39_Chr. Position ID:
chr11|69558847|69559579|-
Gene name:
Eif4a1
Transcript:
ENSMUST00000128519.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,7,6
Exon/intron offsets:
0,174,622
Genomic length:
732
Exon/intron sizes in nt:
9,03,53,110
Flanking exon/introns:
chr11:69558600-69558847|chr11:69559579-69559903
Splice length:
553
Other database IDs:
circBase: hsa_circ_0041925, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_22501
Human Ortholog IDs:
Mature spliced Sequence:
CCCCCAAATACATCAAGATGTTCGTACTGGATGAAGCAGATGAAATGTTAAGCCGAGGGTTCAAGGATCAGATCTATGACATATTCCAGAAGCTCAACAGCAACACACAGGTAGTTTTGTTGTCTGCTACAATGCCTTCTGATGTCCTTGAGGTGACCAAGAAATTTATGAGAGACCCTATTCGGATTCTTGTCAAGAAGGAAGAATTGACCCTGGAGGGTATCCGCCAATTCTACATCAATGTGGAACGAGAGGTGAGGCCCAGTGCAGGAGGCAGACCTGGTAGTAAGTTGTTGAGTGTAACCCCTGACTTCTGAATCTCCAGGAGTGGAAGCTTGACACATTGTGTGACTTGTATGAGACGCTGACCATCACCCAGGCAGTCATCTTTATCAACACCAGAAGGAAGGTGGACTGGCTCACCGAGAAGATGCATGCCCGAGATTTCACTGTTTCTGCCATGCACGGAGATATGGACCAAAAGGAACGAGATGTGATCATGAGGGAGTTCCGGTCTGGCTCTAGCAGAGTATTAATTACCACTGACCTGTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCATGCACGGAGATATGGA
59.96
GATCCTTGAACCCTCGGCTT
59.75
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCATGCACGGAGATATGGA
59.96
CTGATCCTTGAACCCTCGGC
60.46
167
PCR template sequence:
TTCTGCCATGCACGGAGATATGGACCAAAAGGAACGAGATGTGATCATGAGGGAGTTCCGGTCTGGCTCTAGCAGAGTATTAATTACCACTGACCTGTTGCCCCCAAATACATCAAGATGTTCGTACTGGATGAAGCAGATGAAATGTTAAGCCGAGGGTTCAAGGATCAGATCTATGACATATTCCAGAAGCTCAACAG
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-434-3p(1), mmu-miR-433-3p(1), mmu-miR-362-5p(1), mmu-miR-383-5p(1), mmu-miR-224-5p(1), mmu-miR-377-3p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CACTGACCTGTTGCCCCCAAATACAT
siRNA sets
TTTGGGGGCAACAGGTCAG, ATTTGGGGGCAACAGGTCA, ATGTATTTGGGGGCAACAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEIF4A1_553_ORF_3
0.5721
0.122772679
0.07962187
174
ORF sequence:
ATGCATGCCCGAGATTTCACTGTTTCTGCCATGCACGGAGATATGGACCAAAAGGAACGAGATGTGATCATGAGGGAGTTCCGGTCTGGCTCTAGCAGAGTATTAATTACCACTGACCTGTTGCCCCCAAATACATCAAGATGTTCGTACTGGATGAAGCAGATGAAATGTTAA
Peptide sequence:
MHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLPPNTSRCSYWMKQMKC
IRESfinder result
IRESfinder score
0.452046349
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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