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mmu_circNfat5_1178
Basic information of circular RNA
PanCircBase ID:
mmu_circNfat5_1178
mm39_Chr. Position ID:
chr8|108064926|108078231|+
Gene name:
Nfat5
Transcript:
ENSMUST00000154474.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
3,4,5,6,7
Exon/intron offsets:
0,514,6491,9372,13132
Genomic length:
13305
Exon/intron sizes in nt:
6,25,59,19,31,91,173
Flanking exon/introns:
chr8:108051396-108064926|chr8:108078231-108082146
Splice length:
1178
Other database IDs:
CIRCpedia: MMU_CIRCpedia_40233, circAtlas: mmu-Nfat5_0006
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_18395
Human Ortholog IDs:
Mature spliced Sequence:
GATTTGCCTCTGAAGCAGGGAGTGTCTGCATTAAAAATGACCTGTAGTTCTCTGCTTCATAGATGCTTCTTCAGCTCCCTCCTCTTCCTCCATGGGCGGTGCTTGCAGCTCCTTTACCACCTCTTCCAGCCCTACCATTTATTCTACCTCAGTCACCGACAGCAAGGCTATGCAAGTGGAGAGCTGCTCCTCAGCCGTGGGGGTAAGTAACAGAGGGGTAAGTGAAAAGCAGTTAACCGGTAACACAGTTCAGCAGCATCCATCAACCCCGAAGAGGCACACAGTTTTGTACATCTCACCACCACCTGAGGACTTGCTGGATAACAGTCGGATGTCCTGCCAGGATGAGGGGTGTGGATTGGAATCTGAGCAGAGCTGCAGTATGTGGATGGAGGATTCCCCCTCCAACTTCAGTAACATGAGCACCAGTTCCTACAATGATAACACTGAGGTACCTCGTAAATCACGAAAACGAAATCCAAAGCAGAGGCCGGGGGTCAAACGACGAGATTGTGAAGAATCTAATATGGATATATTTGATGCCGACAGTGCCAAAGCACCTCACTATGTGCTTTCTCAGCTTACCACGGACAACAAAGGCAACTCAAAAGCTGGAAATGGAACATTGGACAGCCAAAAGGGAACTGGAGTAAAGAAGAGCCCTATGTTGTGCGGACAGTATCCGGTTAAAAGTGAGGGGAAGGAGCTGAAGATAGTGGTACAGCCTGAAACCCAACACCGAGCCCGGTACCTGACAGAGGGCAGCCGAGGCTCTGTAAAAGACAGAACACAGCAAGGCTTTCCTACGGTGAAGCTGGAAGGCCATAATGAACCAGTGGTGTTGCAGGTATTTGTGGGCAATGATTCTGGTCGAGTAAAACCACATGGATTCTATCAGGCCTGTAGAGTAACTGGGCGAAATACAACTCCCTGCAAAGAAGTGGACATTGAAGGTACCACTGTTATAGAAGTTGGTCTTGATCCTAGCAACAACATGACACTGGCGGTGGACTGTGTTGGAATATTGAAGCTGAGGAATGCCGATGTTGAAGCCAGAATTGGAATTGCTGGATCTAAGAAAAAGAGCACTCGTGCCAGATTGGTTTTTCGAGTTAATATCACAAGGAAAGATGGCTCTACTCTGACATTGCAGACACCTTCTTCCCCCATTTTATGCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGTGCCAGATTGGTTTTTCGA
59.73
GAGGAAGAGGAGGGAGCTGA
60.03
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGTGCCAGATTGGTTTTTCG
59.73
GAGGAAGAGGAGGGAGCTGA
60.03
179
PCR template sequence:
AAAAAGAGCACTCGTGCCAGATTGGTTTTTCGAGTTAATATCACAAGGAAAGATGGCTCTACTCTGACATTGCAGACACCTTCTTCCCCCATTTTATGCAGATTTGCCTCTGAAGCAGGGAGTGTCTGCATTAAAAATGACCTGTAGTTCTCTGCTTCATAGATGCTTCTTCAGCTCCCTCCTCTTCCTCCATGGGCGGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-26a-5p(1), mmu-let-7c-5p(1), mmu-miR-204-5p(1), mmu-miR-132-3p(1), mmu-miR-98-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCATTTTATGCAGATTTGCCTCTGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNFAT5_1178_ORF_1
0.7946
0.174928254
0.993806272
1134
ORF sequence:
ATGGGCGGTGCTTGCAGCTCCTTTACCACCTCTTCCAGCCCTACCATTTATTCTACCTCAGTCACCGACAGCAAGGCTATGCAAGTGGAGAGCTGCTCCTCAGCCGTGGGGGTAAGTAACAGAGGGGTAAGTGAAAAGCAGTTAACCGGTAACACAGTTCAGCAGCATCCATCAACCCCGAAGAGGCACACAGTTTTGTACATCTCACCACCACCTGAGGACTTGCTGGATAACAGTCGGATGTCCTGCCAGGATGAGGGGTGTGGATTGGAATCTGAGCAGAGCTGCAGTATGTGGATGGAGGATTCCCCCTCCAACTTCAGTAACATGAGCACCAGTTCCTACAATGATAACACTGAGGTACCTCGTAAATCACGAAAACGAAATCCAAAGCAGAGGCCGGGGGTCAAACGACGAGATTGTGAAGAATCTAATATGGATATATTTGATGCCGACAGTGCCAAAGCACCTCACTATGTGCTTTCTCAGCTTACCACGGACAACAAAGGCAACTCAAAAGCTGGAAATGGAACATTGGACAGCCAAAAGGGAACTGGAGTAAAGAAGAGCCCTATGTTGTGCGGACAGTATCCGGTTAAAAGTGAGGGGAAGGAGCTGAAGATAGTGGTACAGCCTGAAACCCAACACCGAGCCCGGTACCTGACAGAGGGCAGCCGAGGCTCTGTAAAAGACAGAACACAGCAAGGCTTTCCTACGGTGAAGCTGGAAGGCCATAATGAACCAGTGGTGTTGCAGGTATTTGTGGGCAATGATTCTGGTCGAGTAAAACCACATGGATTCTATCAGGCCTGTAGAGTAACTGGGCGAAATACAACTCCCTGCAAAGAAGTGGACATTGAAGGTACCACTGTTATAGAAGTTGGTCTTGATCCTAGCAACAACATGACACTGGCGGTGGACTGTGTTGGAATATTGAAGCTGAGGAATGCCGATGTTGAAGCCAGAATTGGAATTGCTGGATCTAAGAAAAAGAGCACTCGTGCCAGATTGGTTTTTCGAGTTAATATCACAAGGAAAGATGGCTCTACTCTGACATTGCAGACACCTTCTTCCCCCATTTTATGCAGATTTGCCTCTGAAGCAGGGAGTGTCTGCATTAAAAATGACCTGTAG
Peptide sequence:
MGGACSSFTTSSSPTIYSTSVTDSKAMQVESCSSAVGVSNRGVSEKQLTGNTVQQHPSTPKRHTVLYISPPPEDLLDNSRMSCQDEGCGLESEQSCSMWMEDSPSNFSNMSTSSYNDNTEVPRKSRKRNPKQRPGVKRRDCEESNMDIFDADSAKAPHYVLSQLTTDNKGNSKAGNGTLDSQKGTGVKKSPMLCGQYPVKSEGKELKIVVQPETQHRARYLTEGSRGSVKDRTQQGFPTVKLEGHNEPVVLQVFVGNDSGRVKPHGFYQACRVTGRNTTPCKEVDIEGTTVIEVGLDPSNNMTLAVDCVGILKLRNADVEARIGIAGSKKKSTRARLVFRVNITRKDGSTLTLQTPSSPILCRFASEAGSVCIKNDL
IRESfinder result
IRESfinder score
0.493628482
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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