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mmu_circAcsl4_1374
Basic information of circular RNA
PanCircBase ID:
mmu_circAcsl4_1374
mm39_Chr. Position ID:
chrX|141121879|141143432|-
Gene name:
Acsl4
Transcript:
ENSMUST00000112903.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,1066,2451,4190,4423,6544,10118,12076,12495,21503
Genomic length:
21553
Exon/intron sizes in nt:
173,140,72,124,151,139,110,178,237,50
Flanking exon/introns:
chrX:141116740-141121879|chrX:141143432-141173300
Splice length:
1374
Other database IDs:
circAtlas: mmu-Acsl4_0012
Human Ortholog IDs:
Mature spliced Sequence:
ACTCAGATCACAGGAGATACACCTGTTCTTAAAAGTGAAAGAAGAAATCTAAAAACGCTATGGCAAAGAGAATAAAAGCTAAGCCCACTTCAGACAAACCTGGAAGTCCATATCGCTCTGTCACACACTTCGACTCACTAGCTGTCATAGACATCCCTGGAGCAGATACTCTGGATAAATTATTTGACCATGCTGTAGCCAAATTTGGGAAGAAGGACAGCCTTGGAACCCGGGAGATCCTGAGTGAAGAAAATGAAATGCAGCCAAATGGAAAGGTTTTTAAGAAGTTAATTCTTGGGAATTATAAATGGATAAACTATCTTGAAGTGAACTGCAGAGTGAATAACTTTGGAAGTGGCCTCACTGCATTGGGACTGAAACCAAAGAACACCATTGCCATTTTCTGTGAGACCAGGGCAGAGTGGATGATTGCAGCACAGACTTGCTTTAAGTACAACTTTCCACTTGTGACTTTATATGCCACACTTGGCAGAGAAGCTGTAGTTCATGGATTAAATGAATCTGAGGCTTCCTATCTGATTACTAGTGTTGAGCTTCTGGAAAGCAAACTGAAGGCGGCCTTAGTAGATATCAATTGTGTTAAACATATCATTTATGTGGATAATAAGACTATCAATAGAGCAGAGTACCCTGAGGGGCTTGAAATTCACAGCATGCAATCAGTAGAGGAGCTGGGAGCCAAGCCAGAAAACTTGAGCGTTCCTCCAAGTAGACCAACCCCTTCAGACATGGCCATTGTCATGTACACCAGTGGTTCTACGGGCCGCCCCAAGGGAGTGATGATGCATCATAGCAATTTGATTGCTGGAATGACAGGCCAGTGTGAACGTATCCCTGGACTAGGACCGAAGGACACATATATTGGCTACTTACCTTTGGCTCATGTGCTGGAACTGACAGCAGAGATATCATGCTTTACCTATGGCTGTAGGATTGGATACTCTTCACCCCTTACACTGTCTGACCAGTCCAGCAAAATCAAGAAGGGAAGCAAGGGTGATTGTACTGTACTGAAACCCACACTTATGGCCGCTGTTCCGGAAATCATGGATAGAATTTATAAGAATGTTATGAGCAAGGTTCAAGAGATGAATTATGTTCAGAAAACTCTATTTAAAATCGGGTATGATTACAAATTAGAGCAAATCAAGAAAGGCTATGACGCCCCTCTTTGTAATCTGATACTGTTTAAAAAGGTGAAGGCTCTGCTGGGAGGGAATGTCCGCATGATGCTGTCTGGCGGCGCGCCACTGTCCCCTCAGACACACCGATTCATGAATGTCTGCTTCTGCTGCCCCATTGGTCAGGGATATGGGCTGACAGAATCATGTGGTGCTGGAACAGTTACTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTCAGGGATATGGGCTGA
60.03
TGTCTGAAGTGGGCTTAGCT
58.65
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTCAGGGATATGGGCTGA
60.03
GGTTTGTCTGAAGTGGGCTT
58.31
153
PCR template sequence:
TCCCCTCAGACACACCGATTCATGAATGTCTGCTTCTGCTGCCCCATTGGTCAGGGATATGGGCTGACAGAATCATGTGGTGCTGGAACAGTTACTGAAGACTCAGATCACAGGAGATACACCTGTTCTTAAAAGTGAAAGAAGAAATCTAAAAACGCTATGGCAAAGAGAATAAAAGCTAAGCCCACTTCAGACAAACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
18
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-181a-5p(1), mmu-miR-223-3p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-101b-3p(1), mmu-miR-181b-5p(1), mmu-miR-214-3p(1), mmu-miR-382-5p(1), mmu-miR-340-5p(1), mmu-miR-224-5p(1), mmu-miR-27a-5p(1), mmu-miR-190b-5p(1), mmu-miR-3470b(1), mmu-miR-670-5p(1), mmu-miR-338-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAGTTACTGAAGACTCAGATCACAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACSL4_1374_ORF_1
0.9574
0.105526815
0.998674899
1347
ORF sequence:
ATGGCAAAGAGAATAAAAGCTAAGCCCACTTCAGACAAACCTGGAAGTCCATATCGCTCTGTCACACACTTCGACTCACTAGCTGTCATAGACATCCCTGGAGCAGATACTCTGGATAAATTATTTGACCATGCTGTAGCCAAATTTGGGAAGAAGGACAGCCTTGGAACCCGGGAGATCCTGAGTGAAGAAAATGAAATGCAGCCAAATGGAAAGGTTTTTAAGAAGTTAATTCTTGGGAATTATAAATGGATAAACTATCTTGAAGTGAACTGCAGAGTGAATAACTTTGGAAGTGGCCTCACTGCATTGGGACTGAAACCAAAGAACACCATTGCCATTTTCTGTGAGACCAGGGCAGAGTGGATGATTGCAGCACAGACTTGCTTTAAGTACAACTTTCCACTTGTGACTTTATATGCCACACTTGGCAGAGAAGCTGTAGTTCATGGATTAAATGAATCTGAGGCTTCCTATCTGATTACTAGTGTTGAGCTTCTGGAAAGCAAACTGAAGGCGGCCTTAGTAGATATCAATTGTGTTAAACATATCATTTATGTGGATAATAAGACTATCAATAGAGCAGAGTACCCTGAGGGGCTTGAAATTCACAGCATGCAATCAGTAGAGGAGCTGGGAGCCAAGCCAGAAAACTTGAGCGTTCCTCCAAGTAGACCAACCCCTTCAGACATGGCCATTGTCATGTACACCAGTGGTTCTACGGGCCGCCCCAAGGGAGTGATGATGCATCATAGCAATTTGATTGCTGGAATGACAGGCCAGTGTGAACGTATCCCTGGACTAGGACCGAAGGACACATATATTGGCTACTTACCTTTGGCTCATGTGCTGGAACTGACAGCAGAGATATCATGCTTTACCTATGGCTGTAGGATTGGATACTCTTCACCCCTTACACTGTCTGACCAGTCCAGCAAAATCAAGAAGGGAAGCAAGGGTGATTGTACTGTACTGAAACCCACACTTATGGCCGCTGTTCCGGAAATCATGGATAGAATTTATAAGAATGTTATGAGCAAGGTTCAAGAGATGAATTATGTTCAGAAAACTCTATTTAAAATCGGGTATGATTACAAATTAGAGCAAATCAAGAAAGGCTATGACGCCCCTCTTTGTAATCTGATACTGTTTAAAAAGGTGAAGGCTCTGCTGGGAGGGAATGTCCGCATGATGCTGTCTGGCGGCGCGCCACTGTCCCCTCAGACACACCGATTCATGAATGTCTGCTTCTGCTGCCCCATTGGTCAGGGATATGGGCTGACAGAATCATGTGGTGCTGGAACAGTTACTGAAGACTCAGATCACAGGAGATACACCTGTTCTTAA
Peptide sequence:
MAKRIKAKPTSDKPGSPYRSVTHFDSLAVIDIPGADTLDKLFDHAVAKFGKKDSLGTREILSEENEMQPNGKVFKKLILGNYKWINYLEVNCRVNNFGSGLTALGLKPKNTIAIFCETRAEWMIAAQTCFKYNFPLVTLYATLGREAVVHGLNESEASYLITSVELLESKLKAALVDINCVKHIIYVDNKTINRAEYPEGLEIHSMQSVEELGAKPENLSVPPSRPTPSDMAIVMYTSGSTGRPKGVMMHHSNLIAGMTGQCERIPGLGPKDTYIGYLPLAHVLELTAEISCFTYGCRIGYSSPLTLSDQSSKIKKGSKGDCTVLKPTLMAAVPEIMDRIYKNVMSKVQEMNYVQKTLFKIGYDYKLEQIKKGYDAPLCNLILFKKVKALLGGNVRMMLSGGAPLSPQTHRFMNVCFCCPIGQGYGLTESCGAGTVTEDSDHRRYTCS
IRESfinder result
IRESfinder score
0.577500664
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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