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mmu_circAp4e1_908
Basic information of circular RNA
PanCircBase ID:
mmu_circAp4e1_908
mm39_Chr. Position ID:
chr2|126885340|126891482|+
Gene name:
Ap4e1
Transcript:
ENSMUST00000002063.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
9,10,11,12,13,14
Exon/intron offsets:
0,226,2727,3425,3622,5839
Genomic length:
6142
Exon/intron sizes in nt:
1,23,11,01,40,11,31,19,000
Flanking exon/introns:
chr2:126879779-126885340|chr2:126891482-126894099
Splice length:
908
Other database IDs:
circBase: hsa_circ_0103805, circAtlas: hsa-AP4E1_0037, CIRCpedia: HSA_CIRCpedia_14709
Human Ortholog IDs:
Mature spliced Sequence:
CTATTCTGTTTGAATGTGTACACACAATCTATTCTATTTATCCTAAGTCAGAATTACTTGAGAAGGCTGCCAAGTGCATTGGAAAATTTGTTCTGTCACCTAAAATAAACCTCAAATATTTAGGACTGAAGGCTCTTACCTATGTTATCCAGCAGGATCCTTCTCTGGCTCTTCAACACCAGATAACCATAATTGAATGCCTAGACCACCCTGATCCCATTATTAAAAGAGAGACTCTGGAACTTCTTTACAGAATTACAAATGCACAGAATGTAGTGGTTATTGTACAGAAAATGCTTGAATACTTACATCAGAGCAAAGAAGAGCATATCATCATCAGTTTAGTTGGCAGAATTGCTGAGCTGGCTGAGAAATATGCTCCTGACAACGTGTGGTTTATTCAGACAATGAATGCTGTGTTTTCAGTGGGAGGAGATGTAATGCATCCAGATATTCTCAGCAACTTCCTGAGACTGCTAGCAGAAGGTTTTGATGATGAAACAGAAGATCAACAATTAAGACTCTACGCAGTTCAGTCTTATCTTACTTTACTAGATATGGAAAATACTTTCTATCCACAGAGATTTCTTCAAGTTATGAGTTGGGTGTTAGGAGAGTACTCCTACCTCTTAGATAAAGAAAGTCCAGAGGAGGTTATAACCAGGCTCTACAAGTTACTTATGAGTGACTCCATTTCTTCAGAAACGAAAGCATGGTTGTTTGCTGCGGTAACCAAGTTGACACCTCAAGCTCATTCTTCTCCCTTAGTTGAGAAATTAATCCAAGAATTCACTGTATCCTTGAATACTTGTCTGAGACAGCATGCATTTGAATTGAAACATCTGCATGAAAATACAGAGCTTATGAAGAGCCTGCTTCAGGGTGCTCAGAATTGTGAAGACATAGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCTGAGACAGCATGCATT
57.52
ACTTGGCAGCCTTCTCAAGT
59.52
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTCTGAGACAGCATGCAT
57.52
ACTTGGCAGCCTTCTCAAGT
59.52
175
PCR template sequence:
TTGTCTGAGACAGCATGCATTTGAATTGAAACATCTGCATGAAAATACAGAGCTTATGAAGAGCCTGCTTCAGGGTGCTCAGAATTGTGAAGACATAGTGCTATTCTGTTTGAATGTGTACACACAATCTATTCTATTTATCCTAAGTCAGAATTACTTGAGAAGGCTGCCAAGTGCATTGGAAAATTTGTTCTGTCACC
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-26a-5p(2), mmu-miR-26b-5p(2), mmu-let-7e-5p(1), mmu-miR-434-5p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAAGACATAGTGCTATTCTGTTTGA
siRNA sets
AACAGAATAGCACTATGTC,AAACAGAATAGCACTATGT,CAAACAGAATAGCACTATG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAP4E1_908_ORF_1
0.8217
-0.048271011
0.77946588
723
ORF sequence:
ATGCTTGAATACTTACATCAGAGCAAAGAAGAGCATATCATCATCAGTTTAGTTGGCAGAATTGCTGAGCTGGCTGAGAAATATGCTCCTGACAACGTGTGGTTTATTCAGACAATGAATGCTGTGTTTTCAGTGGGAGGAGATGTAATGCATCCAGATATTCTCAGCAACTTCCTGAGACTGCTAGCAGAAGGTTTTGATGATGAAACAGAAGATCAACAATTAAGACTCTACGCAGTTCAGTCTTATCTTACTTTACTAGATATGGAAAATACTTTCTATCCACAGAGATTTCTTCAAGTTATGAGTTGGGTGTTAGGAGAGTACTCCTACCTCTTAGATAAAGAAAGTCCAGAGGAGGTTATAACCAGGCTCTACAAGTTACTTATGAGTGACTCCATTTCTTCAGAAACGAAAGCATGGTTGTTTGCTGCGGTAACCAAGTTGACACCTCAAGCTCATTCTTCTCCCTTAGTTGAGAAATTAATCCAAGAATTCACTGTATCCTTGAATACTTGTCTGAGACAGCATGCATTTGAATTGAAACATCTGCATGAAAATACAGAGCTTATGAAGAGCCTGCTTCAGGGTGCTCAGAATTGTGAAGACATAGTGCTATTCTGTTTGAATGTGTACACACAATCTATTCTATTTATCCTAAGTCAGAATTACTTGAGAAGGCTGCCAAGTGCATTGGAAAATTTGTTCTGTCACCTAAAATAA
Peptide sequence:
MLEYLHQSKEEHIIISLVGRIAELAEKYAPDNVWFIQTMNAVFSVGGDVMHPDILSNFLRLLAEGFDDETEDQQLRLYAVQSYLTLLDMENTFYPQRFLQVMSWVLGEYSYLLDKESPEEVITRLYKLLMSDSISSETKAWLFAAVTKLTPQAHSSPLVEKLIQEFTVSLNTCLRQHAFELKHLHENTELMKSLLQGAQNCEDIVLFCLNVYTQSILFILSQNYLRRLPSALENLFCHLK
IRESfinder result
IRESfinder score
0.844728336
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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