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mmu_circEml4_2036
Basic information of circular RNA
PanCircBase ID:
mmu_circEml4_2036
mm39_Chr. Position ID:
chr17|83732686|83781177|+
Gene name:
Eml4
Transcript:
ENSMUST00000096766.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
19
Exon/intron indexes:
4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22
Exon/intron offsets:
0,1965,2742,2958,14773,16038,19371,20688,22902,25388,25681,29143,30774,30984,31737,36271,38240,47788,48392
Genomic length:
48491
Exon/intron sizes in nt:
174,129,26,33,124,150,70,111,96,135,136,152,126,132,68,89,98,88,99
Flanking exon/introns:
chr17:83729164-83732686|chr17:83781177-83784632
Splice length:
2036
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TGGTACAGAAAAAAAGAAAGAAAAGCCACAAGGACAGAGAGAAAAAAAAGAGGATTCTCATTCTAATGATCAGAGCCCACAAATTCGAGCGTCACCTTCTCCCCAGCCCTCTTCACAGCCTCTCCAAATAAACAGACAAACTCCAGAGAGCAAGAGTTCTGCTCCCATCAAAAGCATAAAACGTCCACCAACAGCTGAAAAGTCACATAACTCATGGGAAAATTCAGATGATAGTCGTAATAAATTAATGAAAACGGTTTCAACATCAAAACTAATATCAAAGGTTATAAAAAATGCAGACAAACATAAAGATGTCATCGTCAATCAAGCAAAAATGTCAACCCGGGAAAAAAACAGCCAAGAAGGAGAATATATTAAAATGTTTATGCGAGGTCGGCCAATTACAATGTTCATTCCTTCGGATGTTGACAACTATGATGACATCAGAACAGAACTGCCTCCAGAGAAGCTCAAACTGGAGTGGGTATACGGTTATCGAGGAAAGGACTGTAGAGCGAATGTATACCTGCTTCCCACAGGGGAGATAGTTTATTTTATCGCCTCAGTGGTAGTCCTGTTTAATTATGAGGAGAGGACTCAGCGACACTACCTGGGTCATACAGACTGTGTGAGATGCCTTGCTGTACATCCTGACAAGATTAGAATTGCAACTGGACAGATAGCCGGAGTAGACAAAGATGGAAGGCCTCTGCAACCCCATGTCAGGGTGTGGGATTCAGTAAGTCTTACCACACTGCATGTTATTGGACTTGGAACTTTTGAGCGTGGAGTAGGATGCCTGGATTTTTCAAAAGCAGATTCAGGTGTTCATTTATGCGTTATTGATGACTCCAATGAGCACATGCTTACTGTATGGGACTGGCAGAAAAAATCAAAAATCGCAGAAATAAAGACAACAAACGAAGTTGTTTTGGCTGTAGAATTCCACCCAACAGATGCAAATACAATAATAACATGTGGTAAATCTCATATTTTTTTCTGGACCTGGAGTGGCAACTCACTAACAAGAAAACAGGGAATTTTTGGGAAATATGAAAAACCAAAATTCGTTCAGTGTTTGGCATTCTTGGGGAATGGAGATGTTCTCACTGGAGACTCGGGTGGAGTCATGCTGATCTGGAGCAAAACGATGGTAGAGCCCCCGCCCGGGAAAGGACCTAAAGGTGTGTATCAGATCAACAGACAAATCAAAGCTCATGATGGCAGTGTGTTTACACTTTGTCAGATGAGAAATGGGATGCTATTAACTGGAGGCGGAAAAGACAGAAAAATAATTTTGTGGGATCATGATCTGAACCTTGAAAGAGAAATAGAGGTTCCTGATCAGTATGGCACCATTAGAGCAGTTGCAGAGGGAAGGGCAGAACAGTTCTTAGTAGGCACATCACGAAACTTTATTTTACGGGGAACGTTTAATGATGGCTTCCAAATAGAAGTCCAGGGTCATACAGATGAACTCTGGGGCCTTGCAACACATCCCTTCAAAGATTTGCTCTTGACGTGTGCTCAGGACAGGCAGGTGTGCATGTGGAACTCAGTGGAGCACAGGCTGGAGTGGACCAGGCTTGTGGACGAACCAGGACACTGTGCAGACTTTCATCCAAGCGGTACAGTGGTAGCCATTGGAACGCACTCAGGCAGGTGGTTTGTTCTGGATGCAGAAACAAGAGATCTGGTGTCAATCCACACGGATGGCAATGAGCAGCTGTCTGTGATGCGCTACTCAGTAGATGGCACTCTTCTGGCTGTGGGCTCTCATGACAACTTTATTTACCTCTACACAGTCTTAGAAAACGGAAGAAAATACAGCAGATATGGAAAGTGCACTGGACATTCTAGCTACATCACACACCTTGACTGGTCCCCAGACAATAAGCATATAATGTCTAACTCGGGTGACTACGAGATACTGTACTGGGACATTGAAAATGGCTGCAAACTAATCAGGAACCGATCAGATTGCAAGGACATCGATTGGACAACATATACCTGTGTGCTAGGCTTCCAAGTCTTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAAGGACATCGATTGGACA
60
GTGACGCTCGAATTTGTGGG
59.83
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAAGGACATCGATTGGACA
60
GGTGACGCTCGAATTTGTGG
59.83
151
PCR template sequence:
TGGGACATTGAAAATGGCTGCAAACTAATCAGGAACCGATCAGATTGCAAGGACATCGATTGGACAACATATACCTGTGTGCTAGGCTTCCAAGTCTTTGTGGTACAGAAAAAAAGAAAGAAAAGCCACAAGGACAGAGAGAAAAAAAAGAGGATTCTCATTCTAATGATCAGAGCCCACAAATTCGAGCGTCACCTTCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
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), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCAAGTCTTTGTGGTACAGAAAAA
siRNA sets
TTTTTCTGTACCACAAAGA, TTTCTGTACCACAAAGACT, TTTTCTGTACCACAAAGAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEML4_2036_ORF_1
0.8265
0.045013785
0.999964221
1920
ORF sequence:
ATGAAAACGGTTTCAACATCAAAACTAATATCAAAGGTTATAAAAAATGCAGACAAACATAAAGATGTCATCGTCAATCAAGCAAAAATGTCAACCCGGGAAAAAAACAGCCAAGAAGGAGAATATATTAAAATGTTTATGCGAGGTCGGCCAATTACAATGTTCATTCCTTCGGATGTTGACAACTATGATGACATCAGAACAGAACTGCCTCCAGAGAAGCTCAAACTGGAGTGGGTATACGGTTATCGAGGAAAGGACTGTAGAGCGAATGTATACCTGCTTCCCACAGGGGAGATAGTTTATTTTATCGCCTCAGTGGTAGTCCTGTTTAATTATGAGGAGAGGACTCAGCGACACTACCTGGGTCATACAGACTGTGTGAGATGCCTTGCTGTACATCCTGACAAGATTAGAATTGCAACTGGACAGATAGCCGGAGTAGACAAAGATGGAAGGCCTCTGCAACCCCATGTCAGGGTGTGGGATTCAGTAAGTCTTACCACACTGCATGTTATTGGACTTGGAACTTTTGAGCGTGGAGTAGGATGCCTGGATTTTTCAAAAGCAGATTCAGGTGTTCATTTATGCGTTATTGATGACTCCAATGAGCACATGCTTACTGTATGGGACTGGCAGAAAAAATCAAAAATCGCAGAAATAAAGACAACAAACGAAGTTGTTTTGGCTGTAGAATTCCACCCAACAGATGCAAATACAATAATAACATGTGGTAAATCTCATATTTTTTTCTGGACCTGGAGTGGCAACTCACTAACAAGAAAACAGGGAATTTTTGGGAAATATGAAAAACCAAAATTCGTTCAGTGTTTGGCATTCTTGGGGAATGGAGATGTTCTCACTGGAGACTCGGGTGGAGTCATGCTGATCTGGAGCAAAACGATGGTAGAGCCCCCGCCCGGGAAAGGACCTAAAGGTGTGTATCAGATCAACAGACAAATCAAAGCTCATGATGGCAGTGTGTTTACACTTTGTCAGATGAGAAATGGGATGCTATTAACTGGAGGCGGAAAAGACAGAAAAATAATTTTGTGGGATCATGATCTGAACCTTGAAAGAGAAATAGAGGTTCCTGATCAGTATGGCACCATTAGAGCAGTTGCAGAGGGAAGGGCAGAACAGTTCTTAGTAGGCACATCACGAAACTTTATTTTACGGGGAACGTTTAATGATGGCTTCCAAATAGAAGTCCAGGGTCATACAGATGAACTCTGGGGCCTTGCAACACATCCCTTCAAAGATTTGCTCTTGACGTGTGCTCAGGACAGGCAGGTGTGCATGTGGAACTCAGTGGAGCACAGGCTGGAGTGGACCAGGCTTGTGGACGAACCAGGACACTGTGCAGACTTTCATCCAAGCGGTACAGTGGTAGCCATTGGAACGCACTCAGGCAGGTGGTTTGTTCTGGATGCAGAAACAAGAGATCTGGTGTCAATCCACACGGATGGCAATGAGCAGCTGTCTGTGATGCGCTACTCAGTAGATGGCACTCTTCTGGCTGTGGGCTCTCATGACAACTTTATTTACCTCTACACAGTCTTAGAAAACGGAAGAAAATACAGCAGATATGGAAAGTGCACTGGACATTCTAGCTACATCACACACCTTGACTGGTCCCCAGACAATAAGCATATAATGTCTAACTCGGGTGACTACGAGATACTGTACTGGGACATTGAAAATGGCTGCAAACTAATCAGGAACCGATCAGATTGCAAGGACATCGATTGGACAACATATACCTGTGTGCTAGGCTTCCAAGTCTTTGTGGTACAGAAAAAAAGAAAGAAAAGCCACAAGGACAGAGAGAAAAAAAAGAGGATTCTCATTCTAATGATCAGAGCCCACAAATTCGAGCGTCACCTTCTCCCCAGCCCTCTTCACAGCCTCTCCAAATAA
Peptide sequence:
MKTVSTSKLISKVIKNADKHKDVIVNQAKMSTREKNSQEGEYIKMFMRGRPITMFIPSDVDNYDDIRTELPPEKLKLEWVYGYRGKDCRANVYLLPTGEIVYFIASVVVLFNYEERTQRHYLGHTDCVRCLAVHPDKIRIATGQIAGVDKDGRPLQPHVRVWDSVSLTTLHVIGLGTFERGVGCLDFSKADSGVHLCVIDDSNEHMLTVWDWQKKSKIAEIKTTNEVVLAVEFHPTDANTIITCGKSHIFFWTWSGNSLTRKQGIFGKYEKPKFVQCLAFLGNGDVLTGDSGGVMLIWSKTMVEPPPGKGPKGVYQINRQIKAHDGSVFTLCQMRNGMLLTGGGKDRKIILWDHDLNLEREIEVPDQYGTIRAVAEGRAEQFLVGTSRNFILRGTFNDGFQIEVQGHTDELWGLATHPFKDLLLTCAQDRQVCMWNSVEHRLEWTRLVDEPGHCADFHPSGTVVAIGTHSGRWFVLDAETRDLVSIHTDGNEQLSVMRYSVDGTLLAVGSHDNFIYLYTVLENGRKYSRYGKCTGHSSYITHLDWSPDNKHIMSNSGDYEILYWDIENGCKLIRNRSDCKDIDWTTYTCVLGFQVFVVQKKRKKSHKDREKKKRILILMIRAHKFERHLLPSPLHSLSK
IRESfinder result
IRESfinder score
0.50457988
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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