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mmu_circEsco1_733
Basic information of circular RNA
PanCircBase ID:
mmu_circEsco1_733
mm39_Chr. Position ID:
chr18|10571954|10586041|-
Gene name:
Esco1
Transcript:
ENSMUST00000025142.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
10,9,8,7,6,5
Exon/intron offsets:
0,2920,5046,10100,12293,14023
Genomic length:
14087
Exon/intron sizes in nt:
188,144,90,132,115,64
Flanking exon/introns:
chr18:10567646-10571954|chr18:10586041-10588438
Splice length:
733
Other database IDs:
CIRCpedia: MMU_CIRCpedia_1541, circAtlas: mmu-Esco1_0004
circBase: hsa_circ_0108031, circAtlas: hsa-ESCO1_0007, CIRCpedia: HSA_CIRCpedia_132091
Human Ortholog IDs:
Mature spliced Sequence:
GTTCAGCTCCTAATCAGCAGCACAGTGTACTCAGTGATGAAGCGTCTATCAACAGAAAGAACAGGGATGTACCACCAAACCATTCTCAGCTGAAGCATGATTCTCATTTGGAGATAACAATTCCAAAGTCCTTGAAACTGAAAGACTCAGAGAAAGTGGATGAAAAACAGCTGGTCATAGATGCAGGACACAAACGATTTGGAGCAGTGTCCTGTAATATCTGTGGAATGCTCTATACAGCTTCAAATCCAGAAGATGAAACACAGCACCTGCTTTTCCACAACCAGTTTATAAGCGCTGTAAAGTATGTGGGCTGGAAAAAGGAAAGAATTCTTGCTGAATATCCTGATGGTAGAATAATAATGGTTCTTCCTGAAGACCCAAAGTATGCCCTGAAAAAGGTTGATGAAATTAGAGAGATGGTTGACAATGATCTGGGTTTCCAACAGGCTCCATTGATGTGCTATTCCAGAACTAAGACACTTCTCTTTATTTCTAATGACAAAAAAGTAGTTGGTTGCCTAATTGCAGAACATATCCAGTGGGGCTATCGAGTTATAGAAGAGAAACTTCCAGTTATCAGGTCAGAAGAAGAAAAAGTCCGATTTGAAAGGCAAAAAGCCTGGTGCTGCTCAACATTGCCAGAGCCTGCAATATGTGGGATCAGTCGGATATGGGTGTTCAGCATGATGCGGCGGAAGAAGATAGCTTCTCGCATGATTGAATGCCTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCAGAGCCTGCAATATGT
59.74
TGGTTTGGTGGTACATCCCTG
59.93
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCAGAGCCTGCAATATGT
59.74
GGTTTGGTGGTACATCCCTGT
59.93
175
PCR template sequence:
CAACATTGCCAGAGCCTGCAATATGTGGGATCAGTCGGATATGGGTGTTCAGCATGATGCGGCGGAAGAAGATAGCTTCTCGCATGATTGAATGCCTAAGGTTCAGCTCCTAATCAGCAGCACAGTGTACTCAGTGATGAAGCGTCTATCAACAGAAAGAACAGGGATGTACCACCAAACCATTCTCAGCTGAAGCATGA
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-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-127-5p(1), mmu-miR-190b-5p(1), mmu-miR-335-3p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGAATGCCTAAGGTTCAGCTCCTAA
siRNA sets
TAGGAGCTGAACCTTAGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCESCO1_733_ORF_1
0.7809
0.056617977
0.537818928
519
ORF sequence:
ATGCTCTATACAGCTTCAAATCCAGAAGATGAAACACAGCACCTGCTTTTCCACAACCAGTTTATAAGCGCTGTAAAGTATGTGGGCTGGAAAAAGGAAAGAATTCTTGCTGAATATCCTGATGGTAGAATAATAATGGTTCTTCCTGAAGACCCAAAGTATGCCCTGAAAAAGGTTGATGAAATTAGAGAGATGGTTGACAATGATCTGGGTTTCCAACAGGCTCCATTGATGTGCTATTCCAGAACTAAGACACTTCTCTTTATTTCTAATGACAAAAAAGTAGTTGGTTGCCTAATTGCAGAACATATCCAGTGGGGCTATCGAGTTATAGAAGAGAAACTTCCAGTTATCAGGTCAGAAGAAGAAAAAGTCCGATTTGAAAGGCAAAAAGCCTGGTGCTGCTCAACATTGCCAGAGCCTGCAATATGTGGGATCAGTCGGATATGGGTGTTCAGCATGATGCGGCGGAAGAAGATAGCTTCTCGCATGATTGAATGCCTAAGGTTCAGCTCCTAA
Peptide sequence:
MLYTASNPEDETQHLLFHNQFISAVKYVGWKKERILAEYPDGRIIMVLPEDPKYALKKVDEIREMVDNDLGFQQAPLMCYSRTKTLLFISNDKKVVGCLIAEHIQWGYRVIEEKLPVIRSEEEKVRFERQKAWCCSTLPEPAICGISRIWVFSMMRRKKIASRMIECLRFSS
IRESfinder result
IRESfinder score
0.560815146
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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