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mmu_circEvi5_678
Basic information of circular RNA
PanCircBase ID:
mmu_circEvi5_678
mm39_Chr. Position ID:
chr5|107936064|107947126|-
Gene name:
Evi5
Transcript:
ENSMUST00000112642.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
16,15,14,13,12
Exon/intron offsets:
0,2163,7500,9614,10927
Genomic length:
11062
Exon/intron sizes in nt:
96,147,159,141,135
Flanking exon/introns:
chr5:107912637-107936064|chr5:107947126-107960223
Splice length:
678
Other database IDs:
circBase: mmu_circ_0001385, CIRCpedia: MMU_CIRCpedia_2181, circAtlas: mmu-Evi5_0001
circBase: hsa_circ_0013167, circAtlas: hsa-EVI5_0002, CIRCpedia: HSA_CIRCpedia_33174
Human Ortholog IDs:
Mature spliced Sequence:
CATAAATGCAGTTCCACCTACAACGAAGATTTCGTGCTGCAGCTGGAGAAGGAATTGGTTCAAGCCAGACTGAGTGAAGCCGAGTCTCAGTGTGCACTGAAGGAGATGCAGGATAAAGTGTTGGATATAGAGAAGAAGAACAACTCATTTCCTGATGAGAATAATATTGCAAGGCTTCAGGAGGAACTCATCGCTGTGAAGCTGAGGGAAGCCGAAGCCATTATGGGTTTGAAAGAACTTCGACAGCAAGTCAGAACCTTAGAAGAGCACTGGCAGCGTCACTTAGCTCGAACTTCTGGAAGATGGAAAGACCCACCCAAGAAAAATGCTGTGAATGAGTTACAGGATGAGCTGATGAGCATTCGCCTTAGAGAGGCGGAAACACAGGCAGAAATAAGAGAGATGAAGCAAAGGATGATGGAAATGGAGACACAGAACCAGATCAATAGTAACCAACTTCGAAGAGCGGAGCAAGAGGTGAACAGTCTGCAGGAGAAGGTGTGCTCGCTGTCTGTGAAGAACAAGGGCTTGCTTGCCCAGTTAAGTGAGGCAAAGCGCAGACAGGCAGAGATTGAATGCAAGAACAAGGAGGAAGTCATGGCTGTGCGGCTCCGGGAAGCTGATAGCATCGCGGCCGTGGCTGAGCTGCAGCAGCACATTGCTGAGCTTGAAATCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGAGGAAGTCATGGCTGTG
59.38
GGCTTCACTCAGTCTGGCTT
59.96
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCGGGAAGCTGATAGCATCG
60.67
GGCTTCACTCAGTCTGGCTT
59.96
148
PCR template sequence:
CAAGAACAAGGAGGAAGTCATGGCTGTGCGGCTCCGGGAAGCTGATAGCATCGCGGCCGTGGCTGAGCTGCAGCAGCACATTGCTGAGCTTGAAATCCAGCATAAATGCAGTTCCACCTACAACGAAGATTTCGTGCTGCAGCTGGAGAAGGAATTGGTTCAAGCCAGACTGAGTGAAGCCGAGTCTCAGTGTGCACTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-27a-3p(1), mmu-miR-135a-5p(1), mmu-miR-211-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-207(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTTGAAATCCAGCATAAATGCAGTT
siRNA sets
ATTTATGCTGGATTTCAAG, AACTGCATTTATGCTGGAT, TTTATGCTGGATTTCAAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEVI5_678_ORF_1
1.1454
0.404490957
0.9994671
1251
ORF sequence:
ATGCAGGATAAAGTGTTGGATATAGAGAAGAAGAACAACTCATTTCCTGATGAGAATAATATTGCAAGGCTTCAGGAGGAACTCATCGCTGTGAAGCTGAGGGAAGCCGAAGCCATTATGGGTTTGAAAGAACTTCGACAGCAAGTCAGAACCTTAGAAGAGCACTGGCAGCGTCACTTAGCTCGAACTTCTGGAAGATGGAAAGACCCACCCAAGAAAAATGCTGTGAATGAGTTACAGGATGAGCTGATGAGCATTCGCCTTAGAGAGGCGGAAACACAGGCAGAAATAAGAGAGATGAAGCAAAGGATGATGGAAATGGAGACACAGAACCAGATCAATAGTAACCAACTTCGAAGAGCGGAGCAAGAGGTGAACAGTCTGCAGGAGAAGGTGTGCTCGCTGTCTGTGAAGAACAAGGGCTTGCTTGCCCAGTTAAGTGAGGCAAAGCGCAGACAGGCAGAGATTGAATGCAAGAACAAGGAGGAAGTCATGGCTGTGCGGCTCCGGGAAGCTGATAGCATCGCGGCCGTGGCTGAGCTGCAGCAGCACATTGCTGAGCTTGAAATCCAGCATAAATGCAGTTCCACCTACAACGAAGATTTCGTGCTGCAGCTGGAGAAGGAATTGGTTCAAGCCAGACTGAGTGAAGCCGAGTCTCAGTGTGCACTGAAGGAGATGCAGGATAAAGTGTTGGATATAGAGAAGAAGAACAACTCATTTCCTGATGAGAATAATATTGCAAGGCTTCAGGAGGAACTCATCGCTGTGAAGCTGAGGGAAGCCGAAGCCATTATGGGTTTGAAAGAACTTCGACAGCAAGTCAGAACCTTAGAAGAGCACTGGCAGCGTCACTTAGCTCGAACTTCTGGAAGATGGAAAGACCCACCCAAGAAAAATGCTGTGAATGAGTTACAGGATGAGCTGATGAGCATTCGCCTTAGAGAGGCGGAAACACAGGCAGAAATAAGAGAGATGAAGCAAAGGATGATGGAAATGGAGACACAGAACCAGATCAATAGTAACCAACTTCGAAGAGCGGAGCAAGAGGTGAACAGTCTGCAGGAGAAGGTGTGCTCGCTGTCTGTGAAGAACAAGGGCTTGCTTGCCCAGTTAAGTGAGGCAAAGCGCAGACAGGCAGAGATTGAATGCAAGAACAAGGAGGAAGTCATGGCTGTGCGGCTCCGGGAAGCTGATAGCATCGCGGCCGTGGCTGAGCTGCAGCAGCACATTGCTGAGCTTGAAATCCAG
Peptide sequence:
MQDKVLDIEKKNNSFPDENNIARLQEELIAVKLREAEAIMGLKELRQQVRTLEEHWQRHLARTSGRWKDPPKKNAVNELQDELMSIRLREAETQAEIREMKQRMMEMETQNQINSNQLRRAEQEVNSLQEKVCSLSVKNKGLLAQLSEAKRRQAEIECKNKEEVMAVRLREADSIAAVAELQQHIAELEIQHKCSSTYNEDFVLQLEKELVQARLSEAESQCALKEMQDKVLDIEKKNNSFPDENNIARLQEELIAVKLREAEAIMGLKELRQQVRTLEEHWQRHLARTSGRWKDPPKKNAVNELQDELMSIRLREAETQAEIREMKQRMMEMETQNQINSNQLRRAEQEVNSLQEKVCSLSVKNKGLLAQLSEAKRRQAEIECKNKEEVMAVRLREADSIAAVAELQQHIAELEIQ
IRESfinder result
IRESfinder score
0.267510094
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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