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mmu_circNfu1_664
Basic information of circular RNA
PanCircBase ID:
mmu_circNfu1_664
mm39_Chr. Position ID:
chr6|86989888|87002642|+
Gene name:
Nfu1
Transcript:
ENSMUST00000120240.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
3,4,5,6,7,8
Exon/intron offsets:
0,2659,6458,7812,10221,12579
Genomic length:
12754
Exon/intron sizes in nt:
1,01,13,66,71,24,61,170
Flanking exon/introns:
chr6:86986941-86989888|chr6:87002642-87005276
Splice length:
664
Other database IDs:
circBase: hsa_circ_0055066, circAtlas: hsa-NFU1_0013, CIRCpedia: HSA_CIRCpedia_92137
Human Ortholog IDs:
Mature spliced Sequence:
GTTCTGTCATGTAGCGACTCCACACACCTTTAAGAAACAACCTCTGCATCAATATGTACGGAGACCACTTTTCCCGCTGCGCGCACCCTTGTGTAACACAGTACGATTCATGTTTATTCAAACACAAGACACCCCAAATCCCAACAGCTTAAAGTTTATACCAGGAAAGCCGGTTCTTGAGACGAGGACCATGGATTTCCCCACCCCTGCTGCAGCTTTCCGCTCCCCTCTGGCCAGGCAGTTATTCAGAATTGAAGGTGTGAAAAGCGTCTTCTTCGGACCAGATTTCATCACAGTCACAAAGGAGAATGAAGAGTTAGACTGGAATTTACTGAAACCAGACATTTATGCCACAATTATGGACTTCTTTGCATCTGGCTTACCCCTAGTGACCGAGGAGACGCCTCCGCCTCCGGGAGAAGCAGGTAGCTCTGAGGAAGATGACGAAGTCGTGGCAATGATTAAAGAACTGCTAGATACTAGAATAAGGCCAACTGTGCAGGAGGATGGGGGCGACGTGATCTACAGGGGCTTTGAAGATGGCATCGTGCGGCTGAAGCTCCAGGGCTCCTGCACCAGCTGCCCCAGCTCCATCATCACCCTGAAGAGCGGGATTCAGAACATGCTGCAGTTTTATATTCCAGAAGTGGAAGGTGTGGAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGCTCCATCATCACCCTG
60.18
CGGGAAAAGTGGTCTCCGTA
59.4
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCTGAAGAGCGGGATTCAG
60.18
CGGGAAAAGTGGTCTCCGTA
59.4
141
PCR template sequence:
GGGCTCCTGCACCAGCTGCCCCAGCTCCATCATCACCCTGAAGAGCGGGATTCAGAACATGCTGCAGTTTTATATTCCAGAAGTGGAAGGTGTGGAGCAGGTTCTGTCATGTAGCGACTCCACACACCTTTAAGAAACAACCTCTGCATCAATATGTACGGAGACCACTTTTCCCGCTGCGCGCACCCTTGTGTAACACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-1a-3p(1), mmu-miR-503-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-207(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGTGTGGAGCAGGTTCTGTCATGTA
siRNA sets
TACATGACAGAACCTGCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNFU1_664_ORF_1
1.1082
0.261257867
0.890716351
588
ORF sequence:
ATGTTTATTCAAACACAAGACACCCCAAATCCCAACAGCTTAAAGTTTATACCAGGAAAGCCGGTTCTTGAGACGAGGACCATGGATTTCCCCACCCCTGCTGCAGCTTTCCGCTCCCCTCTGGCCAGGCAGTTATTCAGAATTGAAGGTGTGAAAAGCGTCTTCTTCGGACCAGATTTCATCACAGTCACAAAGGAGAATGAAGAGTTAGACTGGAATTTACTGAAACCAGACATTTATGCCACAATTATGGACTTCTTTGCATCTGGCTTACCCCTAGTGACCGAGGAGACGCCTCCGCCTCCGGGAGAAGCAGGTAGCTCTGAGGAAGATGACGAAGTCGTGGCAATGATTAAAGAACTGCTAGATACTAGAATAAGGCCAACTGTGCAGGAGGATGGGGGCGACGTGATCTACAGGGGCTTTGAAGATGGCATCGTGCGGCTGAAGCTCCAGGGCTCCTGCACCAGCTGCCCCAGCTCCATCATCACCCTGAAGAGCGGGATTCAGAACATGCTGCAGTTTTATATTCCAGAAGTGGAAGGTGTGGAGCAGGTTCTGTCATGTAGCGACTCCACACACCTTTAA
Peptide sequence:
MFIQTQDTPNPNSLKFIPGKPVLETRTMDFPTPAAAFRSPLARQLFRIEGVKSVFFGPDFITVTKENEELDWNLLKPDIYATIMDFFASGLPLVTEETPPPPGEAGSSEEDDEVVAMIKELLDTRIRPTVQEDGGDVIYRGFEDGIVRLKLQGSCTSCPSSIITLKSGIQNMLQFYIPEVEGVEQVLSCSDSTHL
IRESfinder result
IRESfinder score
0.551633322
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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