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mmu_circEml4_1763
Basic information of circular RNA
PanCircBase ID:
mmu_circEml4_1763
mm39_Chr. Position ID:
chr17|83734651|83780562|+
Gene name:
Eml4
Transcript:
ENSMUST00000096766.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
17
Exon/intron indexes:
5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21
Exon/intron offsets:
0,777,993,12808,14073,17406,18723,20937,23423,23716,27178,28809,29019,29772,34306,36275,45823
Genomic length:
45911
Exon/intron sizes in nt:
129,26,33,124,150,70,111,96,135,136,152,126,132,68,89,98,88
Flanking exon/introns:
chr17:83732860-83734651|chr17:83780562-83781078
Splice length:
1763
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CATAAAACGTCCACCAACAGCTGAAAAGTCACATAACTCATGGGAAAATTCAGATGATAGTCGTAATAAATTAATGAAAACGGTTTCAACATCAAAACTAATATCAAAGGTTATAAAAAATGCAGACAAACATAAAGATGTCATCGTCAATCAAGCAAAAATGTCAACCCGGGAAAAAAACAGCCAAGAAGGAGAATATATTAAAATGTTTATGCGAGGTCGGCCAATTACAATGTTCATTCCTTCGGATGTTGACAACTATGATGACATCAGAACAGAACTGCCTCCAGAGAAGCTCAAACTGGAGTGGGTATACGGTTATCGAGGAAAGGACTGTAGAGCGAATGTATACCTGCTTCCCACAGGGGAGATAGTTTATTTTATCGCCTCAGTGGTAGTCCTGTTTAATTATGAGGAGAGGACTCAGCGACACTACCTGGGTCATACAGACTGTGTGAGATGCCTTGCTGTACATCCTGACAAGATTAGAATTGCAACTGGACAGATAGCCGGAGTAGACAAAGATGGAAGGCCTCTGCAACCCCATGTCAGGGTGTGGGATTCAGTAAGTCTTACCACACTGCATGTTATTGGACTTGGAACTTTTGAGCGTGGAGTAGGATGCCTGGATTTTTCAAAAGCAGATTCAGGTGTTCATTTATGCGTTATTGATGACTCCAATGAGCACATGCTTACTGTATGGGACTGGCAGAAAAAATCAAAAATCGCAGAAATAAAGACAACAAACGAAGTTGTTTTGGCTGTAGAATTCCACCCAACAGATGCAAATACAATAATAACATGTGGTAAATCTCATATTTTTTTCTGGACCTGGAGTGGCAACTCACTAACAAGAAAACAGGGAATTTTTGGGAAATATGAAAAACCAAAATTCGTTCAGTGTTTGGCATTCTTGGGGAATGGAGATGTTCTCACTGGAGACTCGGGTGGAGTCATGCTGATCTGGAGCAAAACGATGGTAGAGCCCCCGCCCGGGAAAGGACCTAAAGGTGTGTATCAGATCAACAGACAAATCAAAGCTCATGATGGCAGTGTGTTTACACTTTGTCAGATGAGAAATGGGATGCTATTAACTGGAGGCGGAAAAGACAGAAAAATAATTTTGTGGGATCATGATCTGAACCTTGAAAGAGAAATAGAGGTTCCTGATCAGTATGGCACCATTAGAGCAGTTGCAGAGGGAAGGGCAGAACAGTTCTTAGTAGGCACATCACGAAACTTTATTTTACGGGGAACGTTTAATGATGGCTTCCAAATAGAAGTCCAGGGTCATACAGATGAACTCTGGGGCCTTGCAACACATCCCTTCAAAGATTTGCTCTTGACGTGTGCTCAGGACAGGCAGGTGTGCATGTGGAACTCAGTGGAGCACAGGCTGGAGTGGACCAGGCTTGTGGACGAACCAGGACACTGTGCAGACTTTCATCCAAGCGGTACAGTGGTAGCCATTGGAACGCACTCAGGCAGGTGGTTTGTTCTGGATGCAGAAACAAGAGATCTGGTGTCAATCCACACGGATGGCAATGAGCAGCTGTCTGTGATGCGCTACTCAGTAGATGGCACTCTTCTGGCTGTGGGCTCTCATGACAACTTTATTTACCTCTACACAGTCTTAGAAAACGGAAGAAAATACAGCAGATATGGAAAGTGCACTGGACATTCTAGCTACATCACACACCTTGACTGGTCCCCAGACAATAAGCATATAATGTCTAACTCGGGTGACTACGAGATACTGTACT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCACACACCTTGACTGGTCC
59.53
AGTTTTGATGTTGAAACCGTTT
55.59
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACACACCTTGACTGGTCCC
60.54
AGTTTTGATGTTGAAACCGTTT
55.59
170
PCR template sequence:
GGAAAGTGCACTGGACATTCTAGCTACATCACACACCTTGACTGGTCCCCAGACAATAAGCATATAATGTCTAACTCGGGTGACTACGAGATACTGTACTCATAAAACGTCCACCAACAGCTGAAAAGTCACATAACTCATGGGAAAATTCAGATGATAGTCGTAATAAATTAATGAAAACGGTTTCAACATCAAAACTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-499-5p(2), mmu-miR-335-3p(2), mmu-miR-335-5p(1), mmu-miR-148a-3p(1), mmu-miR-30c-5p(1), mmu-miR-217-5p(1), mmu-miR-196a-5p(1), mmu-miR-128-3p(1), mmu-miR-30b-5p(1), mmu-miR-382-5p(1), mmu-miR-324-3p(1), mmu-miR-98-5p(1), mmu-miR-342-3p(1), mmu-miR-5101(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGATACTGTACTCATAAAACGTCCA
siRNA sets
GTTTTATGAGTACAGTATC, TTTATGAGTACAGTATCTC, TTTTATGAGTACAGTATCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEML4_1763_ORF_1
0.8459
0.038209321
0.999822339
1695
ORF sequence:
ATGAAAACGGTTTCAACATCAAAACTAATATCAAAGGTTATAAAAAATGCAGACAAACATAAAGATGTCATCGTCAATCAAGCAAAAATGTCAACCCGGGAAAAAAACAGCCAAGAAGGAGAATATATTAAAATGTTTATGCGAGGTCGGCCAATTACAATGTTCATTCCTTCGGATGTTGACAACTATGATGACATCAGAACAGAACTGCCTCCAGAGAAGCTCAAACTGGAGTGGGTATACGGTTATCGAGGAAAGGACTGTAGAGCGAATGTATACCTGCTTCCCACAGGGGAGATAGTTTATTTTATCGCCTCAGTGGTAGTCCTGTTTAATTATGAGGAGAGGACTCAGCGACACTACCTGGGTCATACAGACTGTGTGAGATGCCTTGCTGTACATCCTGACAAGATTAGAATTGCAACTGGACAGATAGCCGGAGTAGACAAAGATGGAAGGCCTCTGCAACCCCATGTCAGGGTGTGGGATTCAGTAAGTCTTACCACACTGCATGTTATTGGACTTGGAACTTTTGAGCGTGGAGTAGGATGCCTGGATTTTTCAAAAGCAGATTCAGGTGTTCATTTATGCGTTATTGATGACTCCAATGAGCACATGCTTACTGTATGGGACTGGCAGAAAAAATCAAAAATCGCAGAAATAAAGACAACAAACGAAGTTGTTTTGGCTGTAGAATTCCACCCAACAGATGCAAATACAATAATAACATGTGGTAAATCTCATATTTTTTTCTGGACCTGGAGTGGCAACTCACTAACAAGAAAACAGGGAATTTTTGGGAAATATGAAAAACCAAAATTCGTTCAGTGTTTGGCATTCTTGGGGAATGGAGATGTTCTCACTGGAGACTCGGGTGGAGTCATGCTGATCTGGAGCAAAACGATGGTAGAGCCCCCGCCCGGGAAAGGACCTAAAGGTGTGTATCAGATCAACAGACAAATCAAAGCTCATGATGGCAGTGTGTTTACACTTTGTCAGATGAGAAATGGGATGCTATTAACTGGAGGCGGAAAAGACAGAAAAATAATTTTGTGGGATCATGATCTGAACCTTGAAAGAGAAATAGAGGTTCCTGATCAGTATGGCACCATTAGAGCAGTTGCAGAGGGAAGGGCAGAACAGTTCTTAGTAGGCACATCACGAAACTTTATTTTACGGGGAACGTTTAATGATGGCTTCCAAATAGAAGTCCAGGGTCATACAGATGAACTCTGGGGCCTTGCAACACATCCCTTCAAAGATTTGCTCTTGACGTGTGCTCAGGACAGGCAGGTGTGCATGTGGAACTCAGTGGAGCACAGGCTGGAGTGGACCAGGCTTGTGGACGAACCAGGACACTGTGCAGACTTTCATCCAAGCGGTACAGTGGTAGCCATTGGAACGCACTCAGGCAGGTGGTTTGTTCTGGATGCAGAAACAAGAGATCTGGTGTCAATCCACACGGATGGCAATGAGCAGCTGTCTGTGATGCGCTACTCAGTAGATGGCACTCTTCTGGCTGTGGGCTCTCATGACAACTTTATTTACCTCTACACAGTCTTAGAAAACGGAAGAAAATACAGCAGATATGGAAAGTGCACTGGACATTCTAGCTACATCACACACCTTGACTGGTCCCCAGACAATAAGCATATAATGTCTAACTCGGGTGACTACGAGATACTGTACTCATAA
Peptide sequence:
MKTVSTSKLISKVIKNADKHKDVIVNQAKMSTREKNSQEGEYIKMFMRGRPITMFIPSDVDNYDDIRTELPPEKLKLEWVYGYRGKDCRANVYLLPTGEIVYFIASVVVLFNYEERTQRHYLGHTDCVRCLAVHPDKIRIATGQIAGVDKDGRPLQPHVRVWDSVSLTTLHVIGLGTFERGVGCLDFSKADSGVHLCVIDDSNEHMLTVWDWQKKSKIAEIKTTNEVVLAVEFHPTDANTIITCGKSHIFFWTWSGNSLTRKQGIFGKYEKPKFVQCLAFLGNGDVLTGDSGGVMLIWSKTMVEPPPGKGPKGVYQINRQIKAHDGSVFTLCQMRNGMLLTGGGKDRKIILWDHDLNLEREIEVPDQYGTIRAVAEGRAEQFLVGTSRNFILRGTFNDGFQIEVQGHTDELWGLATHPFKDLLLTCAQDRQVCMWNSVEHRLEWTRLVDEPGHCADFHPSGTVVAIGTHSGRWFVLDAETRDLVSIHTDGNEQLSVMRYSVDGTLLAVGSHDNFIYLYTVLENGRKYSRYGKCTGHSSYITHLDWSPDNKHIMSNSGDYEILYS
IRESfinder result
IRESfinder score
0.488399262
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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