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mmu_circTle4_1229
Basic information of circular RNA
PanCircBase ID:
mmu_circTle4_1229
mm39_Chr. Position ID:
chr19|14430942|14445635|-
Gene name:
Tle4
Transcript:
ENSMUST00000052011.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
16,15,14,13,12,11,10,9
Exon/intron offsets:
0,1162,10730,11165,11707,12970,13601,14573
Genomic length:
14693
Exon/intron sizes in nt:
2,48,25,07,71,94,13,31,00,00,000
Flanking exon/introns:
chr19:14429931-14430942|chr19:14445635-14493722
Splice length:
1229
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_64490
Human Ortholog IDs:
Mature spliced Sequence:
AGCTCTTCCGTATCCCCATCAGCCAGTTTCCGGGGTTCTGAGAAACATAGGAACTCTACAGACTATTCCTCAGAGAGCAAAAAGCAGAAAACAGAAGAAAAAGAAATTGCAGCTCGCTATGACAGTGATGGTGAGAAGAGTGATGACAACTTGGTAGTTGATGTGTCCAATGAGGATCCATCTTCCCCCCGAGGAAGCCCAGCACATTCCCCAAGGGAGAATGGCCTGGACAAGACACGACTCCTCAAGAAAGATGCCCCCATCAGCCCCGCTTCTGTTGCATCTTCCAGCAGTACTCCTTCCTCCAAATCCAAAGAGCTTAGCCTTAATGAAAAGTCTACTACTCCTGTTTCAAAGTCCAATACCCCTACTCCACGAACTGATGCACCTACCCCTGGCAGTAATTCTACTCCTGGACTGAGGCCTGTACCTGGAAAGCCACCAGGTGTGGACCCCTTAGCATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTGGTGGGATTTGATCCACACCATCACATGCGAGTGCCAGCAATACCTCCAAATCTAACAGGCATTCCAGGAGGAAAACCAGCATACTCCTTTCACGTCAGTGCCGATGGCCAGATGCAGCCTGTCCCTTTCCCCCCTGATGCCCTCATTGGACCAGGGATCCCCCGACACGCTCGACAGATCAACACCCTCAACCATGGGGAGGTGGTGTGTGCAGTGACCATCAGCAACCCCACAAGGCACGTGTACACAGGTGGCAAGGGCTGTGTTAAGGTCTGGGACATCAGCCACCCTGGCAACAAGAGCCCAGTCTCTCAGCTGGACTGTCTGAACAGGGATAACTACATCCGTTCCTGCAGATTGCTCCCTGATGGTCGCACCTTAATTGTTGGAGGGGAAGCCAGCACACTGTCCATCTGGGACCTGGCAGCTCCAACTCCACGCATCAAGGCAGAGCTGACATCCTCAGCCCCTGCCTGCTATGCTCTGGCCATCAGCCCCGACTCCAAGGTCTGCTTCTCATGCTGCAGCGACGGTAACATCGCAGTGTGGGATCTGCACAACCAGACTCTGGTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTATGCTCTGGCCATCAGC
61.24
CTCAGAACCCCGGAAACTGG
60.32
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTATGCTCTGGCCATCAGC
61.24
TCTCAGAACCCCGGAAACTG
59.31
143
PCR template sequence:
GCTATGCTCTGGCCATCAGCCCCGACTCCAAGGTCTGCTTCTCATGCTGCAGCGACGGTAACATCGCAGTGTGGGATCTGCACAACCAGACTCTGGTGAGAGCTCTTCCGTATCCCCATCAGCCAGTTTCCGGGGTTCTGAGAAACATAGGAACTCTACAGACTATTCCTCAGAGAGCAAAAAGCAGAAAACAGAAGAAA
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-137-3p(1), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-22-3p(1), mmu-miR-107-3p(1), mmu-miR-690(1), mmu-miR-129-5p(1), mmu-miR-335-3p(1), mmu-miR-188-3p(1), mmu-miR-1904(1), mmu-miR-202-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGACTCTGGTGAGAGCTCTTCCGTAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTLE4_1229_ORF_1
0.9201
0.219837772
0.979108662
906
ORF sequence:
ATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTGGTGGGATTTGATCCACACCATCACATGCGAGTGCCAGCAATACCTCCAAATCTAACAGGCATTCCAGGAGGAAAACCAGCATACTCCTTTCACGTCAGTGCCGATGGCCAGATGCAGCCTGTCCCTTTCCCCCCTGATGCCCTCATTGGACCAGGGATCCCCCGACACGCTCGACAGATCAACACCCTCAACCATGGGGAGGTGGTGTGTGCAGTGACCATCAGCAACCCCACAAGGCACGTGTACACAGGTGGCAAGGGCTGTGTTAAGGTCTGGGACATCAGCCACCCTGGCAACAAGAGCCCAGTCTCTCAGCTGGACTGTCTGAACAGGGATAACTACATCCGTTCCTGCAGATTGCTCCCTGATGGTCGCACCTTAATTGTTGGAGGGGAAGCCAGCACACTGTCCATCTGGGACCTGGCAGCTCCAACTCCACGCATCAAGGCAGAGCTGACATCCTCAGCCCCTGCCTGCTATGCTCTGGCCATCAGCCCCGACTCCAAGGTCTGCTTCTCATGCTGCAGCGACGGTAACATCGCAGTGTGGGATCTGCACAACCAGACTCTGGTGAGAGCTCTTCCGTATCCCCATCAGCCAGTTTCCGGGGTTCTGAGAAACATAGGAACTCTACAGACTATTCCTCAGAGAGCAAAAAGCAGAAAACAGAAGAAAAAGAAATTGCAGCTCGCTATGACAGTGATGGTGAGAAGAGTGATGACAACTTGGTAG
Peptide sequence:
MAVPCPYPTPFGIVPHAGMNGELTSPGAAYAGLHNISPQMSAAAAAAAAAAAYGRSPVVGFDPHHHMRVPAIPPNLTGIPGGKPAYSFHVSADGQMQPVPFPPDALIGPGIPRHARQINTLNHGEVVCAVTISNPTRHVYTGGKGCVKVWDISHPGNKSPVSQLDCLNRDNYIRSCRLLPDGRTLIVGGEASTLSIWDLAAPTPRIKAELTSSAPACYALAISPDSKVCFSCCSDGNIAVWDLHNQTLVRALPYPHQPVSGVLRNIGTLQTIPQRAKSRKQKKKKLQLAMTVMVRRVMTTW
IRESfinder result
IRESfinder score
0.437522779
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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