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mmu_circNom1_375
Basic information of circular RNA
PanCircBase ID:
mmu_circNom1_375
mm39_Chr. Position ID:
chr5|29651236|29654689|+
Gene name:
Nom1
Transcript:
ENSMUST00000001611.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,9,10
Exon/intron offsets:
0,575,3343
Genomic length:
3453
Exon/intron sizes in nt:
13,31,32,110
Flanking exon/introns:
chr5:29648469-29651236|chr5:29654689-29656026
Splice length:
375
Other database IDs:
CIRCpedia: MMU_CIRCpedia_225018, circAtlas: mmu-Nom1_0012
circBase: hsa_circ_0083136, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_121885
Human Ortholog IDs:
Mature spliced Sequence:
GCTTGGACTGAAGGACCAGCAGGAGAGAGAGATAGTTCATATCCTCATGGATTGCTGTCTGCAAGAGAAAACCTACAACCCTTTCTATGCTTTCCTGGCCAGCAAATTCTGTGACTATGAAAGGAGATTCCAGATGACTTTCCAGTTCAGCATATGGGACAAATTTCGGGACTTAGAAAATTTGCCAGACACTAAGTTCTCAAATCTGGTTCATCTGCTGGCACACTTGTTGAGGACAAAATCACTTCCACTTTCTGTTCTAAAGGTAGTTGAATTCAGTGAATTGGATAAACCCAGAGTTCACTTCCTACGGAGGGTGTTGACTGCACTGTTGATGGAAACTGAAGACGACGACTTGGCTGTAATTTTTTCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTACGGAGGGTGTTGACT
59.89
GCCAGGAAAGCATAGAAAGGG
58.97
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTACGGAGGGTGTTGACT
59.89
GGCCAGGAAAGCATAGAAAGG
58.97
170
PCR template sequence:
TCAGTGAATTGGATAAACCCAGAGTTCACTTCCTACGGAGGGTGTTGACTGCACTGTTGATGGAAACTGAAGACGACGACTTGGCTGTAATTTTTTCAAGGCTTGGACTGAAGGACCAGCAGGAGAGAGAGATAGTTCATATCCTCATGGATTGCTGTCTGCAAGAGAAAACCTACAACCCTTTCTATGCTTTCCTGGCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TAATTTTTTCAAGGCTTGGACTGAAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNOM1_375_ORF_1
0.9109
0.086503711
0.864459773
702
ORF sequence:
ATGGATTGCTGTCTGCAAGAGAAAACCTACAACCCTTTCTATGCTTTCCTGGCCAGCAAATTCTGTGACTATGAAAGGAGATTCCAGATGACTTTCCAGTTCAGCATATGGGACAAATTTCGGGACTTAGAAAATTTGCCAGACACTAAGTTCTCAAATCTGGTTCATCTGCTGGCACACTTGTTGAGGACAAAATCACTTCCACTTTCTGTTCTAAAGGTAGTTGAATTCAGTGAATTGGATAAACCCAGAGTTCACTTCCTACGGAGGGTGTTGACTGCACTGTTGATGGAAACTGAAGACGACGACTTGGCTGTAATTTTTTCAAGGCTTGGACTGAAGGACCAGCAGGAGAGAGAGATAGTTCATATCCTCATGGATTGCTGTCTGCAAGAGAAAACCTACAACCCTTTCTATGCTTTCCTGGCCAGCAAATTCTGTGACTATGAAAGGAGATTCCAGATGACTTTCCAGTTCAGCATATGGGACAAATTTCGGGACTTAGAAAATTTGCCAGACACTAAGTTCTCAAATCTGGTTCATCTGCTGGCACACTTGTTGAGGACAAAATCACTTCCACTTTCTGTTCTAAAGGTAGTTGAATTCAGTGAATTGGATAAACCCAGAGTTCACTTCCTACGGAGGGTGTTGACTGCACTGTTGATGGAAACTGAAGACGACGACTTGGCTGTAATTTTTTCA
Peptide sequence:
MDCCLQEKTYNPFYAFLASKFCDYERRFQMTFQFSIWDKFRDLENLPDTKFSNLVHLLAHLLRTKSLPLSVLKVVEFSELDKPRVHFLRRVLTALLMETEDDDLAVIFSRLGLKDQQEREIVHILMDCCLQEKTYNPFYAFLASKFCDYERRFQMTFQFSIWDKFRDLENLPDTKFSNLVHLLAHLLRTKSLPLSVLKVVEFSELDKPRVHFLRRVLTALLMETEDDDLAVIFS
IRESfinder result
IRESfinder score
0.729566693
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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