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mmu_circEml4_1662
Basic information of circular RNA
PanCircBase ID:
mmu_circEml4_1662
mm39_Chr. Position ID:
chr17|83732686|83764491|+
Gene name:
Eml4
Transcript:
ENSMUST00000096766.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
4,5,6,7,8,9,10,11,12,13,14,15,16,17,18
Exon/intron offsets:
0,1965,2742,2958,14773,16038,19371,20688,22902,25388,25681,29143,30774,30984,31737
Genomic length:
31805
Exon/intron sizes in nt:
174,129,26,33,124,150,70,111,96,135,136,152,126,132,68
Flanking exon/introns:
chr17:83729164-83732686|chr17:83764491-83768957
Splice length:
1662
Other database IDs:
circAtlas: mmu-Eml4_0013
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_41278
Human Ortholog IDs:
Mature spliced Sequence:
TGGTACAGAAAAAAAGAAAGAAAAGCCACAAGGACAGAGAGAAAAAAAAGAGGATTCTCATTCTAATGATCAGAGCCCACAAATTCGAGCGTCACCTTCTCCCCAGCCCTCTTCACAGCCTCTCCAAATAAACAGACAAACTCCAGAGAGCAAGAGTTCTGCTCCCATCAAAAGCATAAAACGTCCACCAACAGCTGAAAAGTCACATAACTCATGGGAAAATTCAGATGATAGTCGTAATAAATTAATGAAAACGGTTTCAACATCAAAACTAATATCAAAGGTTATAAAAAATGCAGACAAACATAAAGATGTCATCGTCAATCAAGCAAAAATGTCAACCCGGGAAAAAAACAGCCAAGAAGGAGAATATATTAAAATGTTTATGCGAGGTCGGCCAATTACAATGTTCATTCCTTCGGATGTTGACAACTATGATGACATCAGAACAGAACTGCCTCCAGAGAAGCTCAAACTGGAGTGGGTATACGGTTATCGAGGAAAGGACTGTAGAGCGAATGTATACCTGCTTCCCACAGGGGAGATAGTTTATTTTATCGCCTCAGTGGTAGTCCTGTTTAATTATGAGGAGAGGACTCAGCGACACTACCTGGGTCATACAGACTGTGTGAGATGCCTTGCTGTACATCCTGACAAGATTAGAATTGCAACTGGACAGATAGCCGGAGTAGACAAAGATGGAAGGCCTCTGCAACCCCATGTCAGGGTGTGGGATTCAGTAAGTCTTACCACACTGCATGTTATTGGACTTGGAACTTTTGAGCGTGGAGTAGGATGCCTGGATTTTTCAAAAGCAGATTCAGGTGTTCATTTATGCGTTATTGATGACTCCAATGAGCACATGCTTACTGTATGGGACTGGCAGAAAAAATCAAAAATCGCAGAAATAAAGACAACAAACGAAGTTGTTTTGGCTGTAGAATTCCACCCAACAGATGCAAATACAATAATAACATGTGGTAAATCTCATATTTTTTTCTGGACCTGGAGTGGCAACTCACTAACAAGAAAACAGGGAATTTTTGGGAAATATGAAAAACCAAAATTCGTTCAGTGTTTGGCATTCTTGGGGAATGGAGATGTTCTCACTGGAGACTCGGGTGGAGTCATGCTGATCTGGAGCAAAACGATGGTAGAGCCCCCGCCCGGGAAAGGACCTAAAGGTGTGTATCAGATCAACAGACAAATCAAAGCTCATGATGGCAGTGTGTTTACACTTTGTCAGATGAGAAATGGGATGCTATTAACTGGAGGCGGAAAAGACAGAAAAATAATTTTGTGGGATCATGATCTGAACCTTGAAAGAGAAATAGAGGTTCCTGATCAGTATGGCACCATTAGAGCAGTTGCAGAGGGAAGGGCAGAACAGTTCTTAGTAGGCACATCACGAAACTTTATTTTACGGGGAACGTTTAATGATGGCTTCCAAATAGAAGTCCAGGGTCATACAGATGAACTCTGGGGCCTTGCAACACATCCCTTCAAAGATTTGCTCTTGACGTGTGCTCAGGACAGGCAGGTGTGCATGTGGAACTCAGTGGAGCACAGGCTGGAGTGGACCAGGCTTGTGGACGAACCAGGACACTGTGCAGACTTTCATCCAAGCGGTACAGTGGTAGCCATTGGAACGCACTCAGGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATCCAAGCGGTACAGTGGT
60.04
GGTGACGCTCGAATTTGTGG
59.83
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAACCAGGACACTGTGCAGA
59.89
GTGACGCTCGAATTTGTGGG
59.83
163
PCR template sequence:
AGCACAGGCTGGAGTGGACCAGGCTTGTGGACGAACCAGGACACTGTGCAGACTTTCATCCAAGCGGTACAGTGGTAGCCATTGGAACGCACTCAGGCAGTGGTACAGAAAAAAAGAAAGAAAAGCCACAAGGACAGAGAGAAAAAAAAGAGGATTCTCATTCTAATGATCAGAGCCCACAAATTCGAGCGTCACCTTCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-335-3p(2), mmu-miR-335-5p(1), mmu-miR-30c-5p(1), mmu-miR-196a-5p(1), mmu-miR-128-3p(1), mmu-miR-30b-5p(1), mmu-miR-324-3p(1), mmu-miR-499-5p(1), mmu-miR-342-3p(1), mmu-miR-5101(1), mmu-miR-188-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CGCACTCAGGCAGTGGTACAGAAAAA
siRNA sets
TTTTTCTGTACCACTGCCT, TTTTCTGTACCACTGCCTG, TTTCTGTACCACTGCCTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEML4_1662_ORF_1
0.8552
0.014303787
0.999999991
3075
ORF sequence:
ATGAAAACGGTTTCAACATCAAAACTAATATCAAAGGTTATAAAAAATGCAGACAAACATAAAGATGTCATCGTCAATCAAGCAAAAATGTCAACCCGGGAAAAAAACAGCCAAGAAGGAGAATATATTAAAATGTTTATGCGAGGTCGGCCAATTACAATGTTCATTCCTTCGGATGTTGACAACTATGATGACATCAGAACAGAACTGCCTCCAGAGAAGCTCAAACTGGAGTGGGTATACGGTTATCGAGGAAAGGACTGTAGAGCGAATGTATACCTGCTTCCCACAGGGGAGATAGTTTATTTTATCGCCTCAGTGGTAGTCCTGTTTAATTATGAGGAGAGGACTCAGCGACACTACCTGGGTCATACAGACTGTGTGAGATGCCTTGCTGTACATCCTGACAAGATTAGAATTGCAACTGGACAGATAGCCGGAGTAGACAAAGATGGAAGGCCTCTGCAACCCCATGTCAGGGTGTGGGATTCAGTAAGTCTTACCACACTGCATGTTATTGGACTTGGAACTTTTGAGCGTGGAGTAGGATGCCTGGATTTTTCAAAAGCAGATTCAGGTGTTCATTTATGCGTTATTGATGACTCCAATGAGCACATGCTTACTGTATGGGACTGGCAGAAAAAATCAAAAATCGCAGAAATAAAGACAACAAACGAAGTTGTTTTGGCTGTAGAATTCCACCCAACAGATGCAAATACAATAATAACATGTGGTAAATCTCATATTTTTTTCTGGACCTGGAGTGGCAACTCACTAACAAGAAAACAGGGAATTTTTGGGAAATATGAAAAACCAAAATTCGTTCAGTGTTTGGCATTCTTGGGGAATGGAGATGTTCTCACTGGAGACTCGGGTGGAGTCATGCTGATCTGGAGCAAAACGATGGTAGAGCCCCCGCCCGGGAAAGGACCTAAAGGTGTGTATCAGATCAACAGACAAATCAAAGCTCATGATGGCAGTGTGTTTACACTTTGTCAGATGAGAAATGGGATGCTATTAACTGGAGGCGGAAAAGACAGAAAAATAATTTTGTGGGATCATGATCTGAACCTTGAAAGAGAAATAGAGGTTCCTGATCAGTATGGCACCATTAGAGCAGTTGCAGAGGGAAGGGCAGAACAGTTCTTAGTAGGCACATCACGAAACTTTATTTTACGGGGAACGTTTAATGATGGCTTCCAAATAGAAGTCCAGGGTCATACAGATGAACTCTGGGGCCTTGCAACACATCCCTTCAAAGATTTGCTCTTGACGTGTGCTCAGGACAGGCAGGTGTGCATGTGGAACTCAGTGGAGCACAGGCTGGAGTGGACCAGGCTTGTGGACGAACCAGGACACTGTGCAGACTTTCATCCAAGCGGTACAGTGGTAGCCATTGGAACGCACTCAGGCAGTGGTACAGAAAAAAAGAAAGAAAAGCCACAAGGACAGAGAGAAAAAAAAGAGGATTCTCATTCTAATGATCAGAGCCCACAAATTCGAGCGTCACCTTCTCCCCAGCCCTCTTCACAGCCTCTCCAAATAAACAGACAAACTCCAGAGAGCAAGAGTTCTGCTCCCATCAAAAGCATAAAACGTCCACCAACAGCTGAAAAGTCACATAACTCATGGGAAAATTCAGATGATAGTCGTAATAAATTAATGAAAACGGTTTCAACATCAAAACTAATATCAAAGGTTATAAAAAATGCAGACAAACATAAAGATGTCATCGTCAATCAAGCAAAAATGTCAACCCGGGAAAAAAACAGCCAAGAAGGAGAATATATTAAAATGTTTATGCGAGGTCGGCCAATTACAATGTTCATTCCTTCGGATGTTGACAACTATGATGACATCAGAACAGAACTGCCTCCAGAGAAGCTCAAACTGGAGTGGGTATACGGTTATCGAGGAAAGGACTGTAGAGCGAATGTATACCTGCTTCCCACAGGGGAGATAGTTTATTTTATCGCCTCAGTGGTAGTCCTGTTTAATTATGAGGAGAGGACTCAGCGACACTACCTGGGTCATACAGACTGTGTGAGATGCCTTGCTGTACATCCTGACAAGATTAGAATTGCAACTGGACAGATAGCCGGAGTAGACAAAGATGGAAGGCCTCTGCAACCCCATGTCAGGGTGTGGGATTCAGTAAGTCTTACCACACTGCATGTTATTGGACTTGGAACTTTTGAGCGTGGAGTAGGATGCCTGGATTTTTCAAAAGCAGATTCAGGTGTTCATTTATGCGTTATTGATGACTCCAATGAGCACATGCTTACTGTATGGGACTGGCAGAAAAAATCAAAAATCGCAGAAATAAAGACAACAAACGAAGTTGTTTTGGCTGTAGAATTCCACCCAACAGATGCAAATACAATAATAACATGTGGTAAATCTCATATTTTTTTCTGGACCTGGAGTGGCAACTCACTAACAAGAAAACAGGGAATTTTTGGGAAATATGAAAAACCAAAATTCGTTCAGTGTTTGGCATTCTTGGGGAATGGAGATGTTCTCACTGGAGACTCGGGTGGAGTCATGCTGATCTGGAGCAAAACGATGGTAGAGCCCCCGCCCGGGAAAGGACCTAAAGGTGTGTATCAGATCAACAGACAAATCAAAGCTCATGATGGCAGTGTGTTTACACTTTGTCAGATGAGAAATGGGATGCTATTAACTGGAGGCGGAAAAGACAGAAAAATAATTTTGTGGGATCATGATCTGAACCTTGAAAGAGAAATAGAGGTTCCTGATCAGTATGGCACCATTAGAGCAGTTGCAGAGGGAAGGGCAGAACAGTTCTTAGTAGGCACATCACGAAACTTTATTTTACGGGGAACGTTTAATGATGGCTTCCAAATAGAAGTCCAGGGTCATACAGATGAACTCTGGGGCCTTGCAACACATCCCTTCAAAGATTTGCTCTTGACGTGTGCTCAGGACAGGCAGGTGTGCATGTGGAACTCAGTGGAGCACAGGCTGGAGTGGACCAGGCTTGTGGACGAACCAGGACACTGTGCAGACTTTCATCCAAGCGGTACAGTGGTAGCCATTGGAACGCACTCAGGC
Peptide sequence:
MKTVSTSKLISKVIKNADKHKDVIVNQAKMSTREKNSQEGEYIKMFMRGRPITMFIPSDVDNYDDIRTELPPEKLKLEWVYGYRGKDCRANVYLLPTGEIVYFIASVVVLFNYEERTQRHYLGHTDCVRCLAVHPDKIRIATGQIAGVDKDGRPLQPHVRVWDSVSLTTLHVIGLGTFERGVGCLDFSKADSGVHLCVIDDSNEHMLTVWDWQKKSKIAEIKTTNEVVLAVEFHPTDANTIITCGKSHIFFWTWSGNSLTRKQGIFGKYEKPKFVQCLAFLGNGDVLTGDSGGVMLIWSKTMVEPPPGKGPKGVYQINRQIKAHDGSVFTLCQMRNGMLLTGGGKDRKIILWDHDLNLEREIEVPDQYGTIRAVAEGRAEQFLVGTSRNFILRGTFNDGFQIEVQGHTDELWGLATHPFKDLLLTCAQDRQVCMWNSVEHRLEWTRLVDEPGHCADFHPSGTVVAIGTHSGSGTEKKKEKPQGQREKKEDSHSNDQSPQIRASPSPQPSSQPLQINRQTPESKSSAPIKSIKRPPTAEKSHNSWENSDDSRNKLMKTVSTSKLISKVIKNADKHKDVIVNQAKMSTREKNSQEGEYIKMFMRGRPITMFIPSDVDNYDDIRTELPPEKLKLEWVYGYRGKDCRANVYLLPTGEIVYFIASVVVLFNYEERTQRHYLGHTDCVRCLAVHPDKIRIATGQIAGVDKDGRPLQPHVRVWDSVSLTTLHVIGLGTFERGVGCLDFSKADSGVHLCVIDDSNEHMLTVWDWQKKSKIAEIKTTNEVVLAVEFHPTDANTIITCGKSHIFFWTWSGNSLTRKQGIFGKYEKPKFVQCLAFLGNGDVLTGDSGGVMLIWSKTMVEPPPGKGPKGVYQINRQIKAHDGSVFTLCQMRNGMLLTGGGKDRKIILWDHDLNLEREIEVPDQYGTIRAVAEGRAEQFLVGTSRNFILRGTFNDGFQIEVQGHTDELWGLATHPFKDLLLTCAQDRQVCMWNSVEHRLEWTRLVDEPGHCADFHPSGTVVAIGTHSG
IRESfinder result
IRESfinder score
0.527021098
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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