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mmu_circEntr1_524
Basic information of circular RNA
PanCircBase ID:
mmu_circEntr1_524
mm39_Chr. Position ID:
chr2|26276915|26277683|-
Gene name:
Entr1
Transcript:
ENSMUST00000114100.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,3
Exon/intron offsets:
0,652
Genomic length:
768
Exon/intron sizes in nt:
4,08,116
Flanking exon/introns:
chr2:26276075-26276915|chr2:26277683-26278927
Splice length:
524
Other database IDs:
CIRCpedia: MMU_CIRCpedia_212062, circAtlas: mmu-Sdccag3_0005
circAtlas: hsa-SDCCAG3_0001, CIRCpedia: HSA_CIRCpedia_63421
Human Ortholog IDs:
Mature spliced Sequence:
GTGACAAACTTGAAGACCTTGAAGAAGCCAATCCATTCTCCTTCAAAGAGTTTTTGAAAACCAAGAACCTCAGCCTGTCAAAAGAAGACACGACCACCAGCCGAATTTACCCAAAGGAAGCCTCAAGGCACCCACTGGGACTAGAGCACAGCTCCCCTGCCTCCCAGCTCATGGGATATGGCCTGGAATCTCAGCAGCCATTTTTTGAAGACCCAACAAGAGCCAGCAACCTAGAGGAGGATGAAGATGATGGATGGAATATAACCTACTTGCCATCTGCCGTGGATCAGACTCATTCCTCTAGAGACACACAGGACTCACCGCCCTGTGACACCTACCTTTCCTTTTTCTCCAACTCGTCAGAGCTGGCATGTCCCGAGTCTTTGCCCCCATGGACGCTGAGTGACACCGACTCCAGGATCTCCCCAGCGTCTCCAGCTGGGAGTCCTAATGCAGACTTTGCAGCTCATGAAGAATCCCTAGGGGACAGACACCTGCGGACGCTGCAGATAAGTTATGAAGCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGCTGGGAGTCCTAATGC
60.18
TGACAGGCTGAGGTTCTTGG
59.6
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGCTGGGAGTCCTAATGC
60.18
GACAGGCTGAGGTTCTTGGT
59.6
169
PCR template sequence:
CCCAGCGTCTCCAGCTGGGAGTCCTAATGCAGACTTTGCAGCTCATGAAGAATCCCTAGGGGACAGACACCTGCGGACGCTGCAGATAAGTTATGAAGCAGTGACAAACTTGAAGACCTTGAAGAAGCCAATCCATTCTCCTTCAAAGAGTTTTTGAAAACCAAGAACCTCAGCCTGTCAAAAGAAGACACGACCACCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-138-5p(1), mmu-miR-149-5p(1), mmu-miR-541-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGTTATGAAGCAGTGACAAACTTGA
siRNA sets
TTTGTCACTGCTTCATAAC, TTGTCACTGCTTCATAACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCENTR1_524_ORF_1
0.9431
0.166303095
0.532968431
411
ORF sequence:
ATGGGATATGGCCTGGAATCTCAGCAGCCATTTTTTGAAGACCCAACAAGAGCCAGCAACCTAGAGGAGGATGAAGATGATGGATGGAATATAACCTACTTGCCATCTGCCGTGGATCAGACTCATTCCTCTAGAGACACACAGGACTCACCGCCCTGTGACACCTACCTTTCCTTTTTCTCCAACTCGTCAGAGCTGGCATGTCCCGAGTCTTTGCCCCCATGGACGCTGAGTGACACCGACTCCAGGATCTCCCCAGCGTCTCCAGCTGGGAGTCCTAATGCAGACTTTGCAGCTCATGAAGAATCCCTAGGGGACAGACACCTGCGGACGCTGCAGATAAGTTATGAAGCAGTGACAAACTTGAAGACCTTGAAGAAGCCAATCCATTCTCCTTCAAAGAGTTTTTGA
Peptide sequence:
MGYGLESQQPFFEDPTRASNLEEDEDDGWNITYLPSAVDQTHSSRDTQDSPPCDTYLSFFSNSSELACPESLPPWTLSDTDSRISPASPAGSPNADFAAHEESLGDRHLRTLQISYEAVTNLKTLKKPIHSPSKSF
IRESfinder result
IRESfinder score
0.591469405
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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