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mmu_circEml4_949
Basic information of circular RNA
PanCircBase ID:
mmu_circEml4_949
mm39_Chr. Position ID:
chr17|83717454|83748874|+
Gene name:
Eml4
Transcript:
ENSMUST00000096766.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
2,3,4,5,6,7,8,9
Exon/intron offsets:
0,11580,15232,17197,17974,18190,30005,31270
Genomic length:
31420
Exon/intron sizes in nt:
1,83,13,01,74,12,92,63,00,00,000
Flanking exon/introns:
chr17:83658668-83717454|chr17:83748874-83752057
Splice length:
949
Other database IDs:
CIRCpedia: MMU_CIRCpedia_31288, circAtlas: mmu-Eml4_0034
Human Ortholog IDs:
Mature spliced Sequence:
ATGATAGTATTTCTGCTGCAAGTACCTCTGACGTTCAAGACCGCCTCTCAGCTCTTGAGTCACGAGTTCAACAACAAGAAGATGAAATCACTGTGCTAAAGGCAGCATTGGCTGATGTTTTGAGGCGTCTTGCAATCTCTGAAGATCATGTAGCCTCAGTGAAAAAGTCCATGCCAAGTAAAGGCCAACCAAGCCTTCGAGAAGCTATTTCTATGTCCTGTATAACCAATGGAAGTGGTATAAGCAGAAAACAGAATCATACCAGCTCTGTATCAATAGCAAGAAAAGAAACTCTTTCTTCAGCTGCTAAAAGTGGTACAGAAAAAAAGAAAGAAAAGCCACAAGGACAGAGAGAAAAAAAAGAGGATTCTCATTCTAATGATCAGAGCCCACAAATTCGAGCGTCACCTTCTCCCCAGCCCTCTTCACAGCCTCTCCAAATAAACAGACAAACTCCAGAGAGCAAGAGTTCTGCTCCCATCAAAAGCATAAAACGTCCACCAACAGCTGAAAAGTCACATAACTCATGGGAAAATTCAGATGATAGTCGTAATAAATTAATGAAAACGGTTTCAACATCAAAACTAATATCAAAGGTTATAAAAAATGCAGACAAACATAAAGATGTCATCGTCAATCAAGCAAAAATGTCAACCCGGGAAAAAAACAGCCAAGAAGGAGAATATATTAAAATGTTTATGCGAGGTCGGCCAATTACAATGTTCATTCCTTCGGATGTTGACAACTATGATGACATCAGAACAGAACTGCCTCCAGAGAAGCTCAAACTGGAGTGGGTATACGGTTATCGAGGAAAGGACTGTAGAGCGAATGTATACCTGCTTCCCACAGGGGAGATAGTTTATTTTATCGCCTCAGTGGTAGTCCTGTTTAATTATGAGGAGAGGACTCAGCGACACTACCTGGGTCATACAGACTGTGTGAGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCGCCTCAGTGGTAGTCCT
60.03
ACTCGTGACTCAAGAGCTGA
58.39
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCGCCTCAGTGGTAGTCCT
60.03
AACTCGTGACTCAAGAGCTGA
59.04
148
PCR template sequence:
CAGGGGAGATAGTTTATTTTATCGCCTCAGTGGTAGTCCTGTTTAATTATGAGGAGAGGACTCAGCGACACTACCTGGGTCATACAGACTGTGTGAGATGATGATAGTATTTCTGCTGCAAGTACCTCTGACGTTCAAGACCGCCTCTCAGCTCTTGAGTCACGAGTTCAACAACAAGAAGATGAAATCACTGTGCTAAA
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-221-3p(1), mmu-miR-196a-5p(1), mmu-miR-128-3p(1), mmu-miR-342-3p(1), mmu-miR-335-3p(1), mmu-miR-3105-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTGTGTGAGATGATGATAGTATTTC
siRNA sets
AATACTATCATCATCTCAC, AAATACTATCATCATCTCA, ATACTATCATCATCTCACA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEML4_949_ORF_1
0.8684
0.024479408
0.886578809
780
ORF sequence:
ATGCCAAGTAAAGGCCAACCAAGCCTTCGAGAAGCTATTTCTATGTCCTGTATAACCAATGGAAGTGGTATAAGCAGAAAACAGAATCATACCAGCTCTGTATCAATAGCAAGAAAAGAAACTCTTTCTTCAGCTGCTAAAAGTGGTACAGAAAAAAAGAAAGAAAAGCCACAAGGACAGAGAGAAAAAAAAGAGGATTCTCATTCTAATGATCAGAGCCCACAAATTCGAGCGTCACCTTCTCCCCAGCCCTCTTCACAGCCTCTCCAAATAAACAGACAAACTCCAGAGAGCAAGAGTTCTGCTCCCATCAAAAGCATAAAACGTCCACCAACAGCTGAAAAGTCACATAACTCATGGGAAAATTCAGATGATAGTCGTAATAAATTAATGAAAACGGTTTCAACATCAAAACTAATATCAAAGGTTATAAAAAATGCAGACAAACATAAAGATGTCATCGTCAATCAAGCAAAAATGTCAACCCGGGAAAAAAACAGCCAAGAAGGAGAATATATTAAAATGTTTATGCGAGGTCGGCCAATTACAATGTTCATTCCTTCGGATGTTGACAACTATGATGACATCAGAACAGAACTGCCTCCAGAGAAGCTCAAACTGGAGTGGGTATACGGTTATCGAGGAAAGGACTGTAGAGCGAATGTATACCTGCTTCCCACAGGGGAGATAGTTTATTTTATCGCCTCAGTGGTAGTCCTGTTTAATTATGAGGAGAGGACTCAGCGACACTACCTGGGTCATACAGACTGTGTGAGATGA
Peptide sequence:
MPSKGQPSLREAISMSCITNGSGISRKQNHTSSVSIARKETLSSAAKSGTEKKKEKPQGQREKKEDSHSNDQSPQIRASPSPQPSSQPLQINRQTPESKSSAPIKSIKRPPTAEKSHNSWENSDDSRNKLMKTVSTSKLISKVIKNADKHKDVIVNQAKMSTREKNSQEGEYIKMFMRGRPITMFIPSDVDNYDDIRTELPPEKLKLEWVYGYRGKDCRANVYLLPTGEIVYFIASVVVLFNYEERTQRHYLGHTDCVR
IRESfinder result
IRESfinder score
0.536004876
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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