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mmu_circNme7_879
Basic information of circular RNA
PanCircBase ID:
mmu_circNme7_879
mm39_Chr. Position ID:
chr1|164160180|164213370|+
Gene name:
Nme7
Transcript:
ENSMUST00000193808.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
6,7,8,9,10,11,12,13
Exon/intron offsets:
0,8117,10602,12607,15162,46747,48029,53088
Genomic length:
53190
Exon/intron sizes in nt:
16,71,11,51,20,81,06,60,00,000
Flanking exon/introns:
chr1:164155969-164160180|chr1:164213370-164230538
Splice length:
879
Other database IDs:
CIRCpedia: MMU_CIRCpedia_225268, circAtlas: mmu-Nme7_0007
CIRCpedia: HSA_CIRCpedia_179009
Human Ortholog IDs:
Mature spliced Sequence:
CATGATGTAAAGAATCGTCGCACCTTCTTAAAGCGGACCAAGTATGAGGACCTGCGCCTGGAAGATCTATTTATAGGCAACAAAGTCAATGTGTTTTCTCGACAGCTGGTGTTGATTGACTATGGGGACCAATACACAGCCCGCCAGCTGGGCAGCAGGAAAGAGAAAACTTTAGCCCTGATCAAACCAGATGCAGTGTCAAAGGCCGGAGAAATCATTGAGATGATAAACAAAAGTGGATTTACTATAACCAAACTCCGAATGATGACTCTGACAAGGAAAGAAGCAGCGGACTTTCATGTAGACCATCACTCAAGACCTTTTTATAACGAACTGATCCAGTTTATCACAAGTGGGCCTGTTATTGCCATGGAGATCTTAAGAGATGACGCGATCTGTGAGTGGAAAAGGTTGCTTGGACCCGCAAACTCTGGGCTATCACGGACAGATGCCCCCGGAAGCATCCGAGCCCTCTTTGGGACAGATGGCGTGAGAAATGCAGCTCACGGCCCTGATACTTTTGCATCTGCTGCCAGAGAAATGGAATTGTTTTTTCCTTCAAGTGGAGGCTGTGGGCCAGCGAACACTGCTAAATTTACCAATTGCACCTGTTGCATCATTAAGCCTCATGCTATCAGTGAAGGAATGTTGGGAAAGATTTTAATAGCTATTCGGGATGCATGCTTTGGAATGTCAGCGATACAGATGTTCAATTTGGATCGGGCTAATGTTGAAGAATTCTATGAAGTCTATAAAGGTGTAGTGTCTGAGTATAATGATATGGTGACAGAGCTGTGCTCCGGCCCTTGCGTAGCAATAGAGATCCAACAGAGCAACCCTACAAAGACATTTCGAGAATTCTGCGGACCTGCTGATCCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTGACAGAGCTGTGCT
58.45
GGTCCTCATACTTGGTCCGC
60.18
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTGACAGAGCTGTGCT
58.45
CGCAGGTCCTCATACTTGGT
59.46
154
PCR template sequence:
TATGGTGACAGAGCTGTGCTCCGGCCCTTGCGTAGCAATAGAGATCCAACAGAGCAACCCTACAAAGACATTTCGAGAATTCTGCGGACCTGCTGATCCTCATGATGTAAAGAATCGTCGCACCTTCTTAAAGCGGACCAAGTATGAGGACCTGCGCCTGGAAGATCTATTTATAGGCAACAAAGTCAATGTGTTTTCTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-217-5p(1), mmu-miR-324-5p(1), mmu-miR-149-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-680(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCTGCTGATCCTCATGATGTAAAGA
siRNA sets
TTACATCATGAGGATCAGC, TTTACATCATGAGGATCAG, TACATCATGAGGATCAGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNME7_879_ORF_1
0.8643
0.140623726
0.999658667
1536
ORF sequence:
ATGATAAACAAAAGTGGATTTACTATAACCAAACTCCGAATGATGACTCTGACAAGGAAAGAAGCAGCGGACTTTCATGTAGACCATCACTCAAGACCTTTTTATAACGAACTGATCCAGTTTATCACAAGTGGGCCTGTTATTGCCATGGAGATCTTAAGAGATGACGCGATCTGTGAGTGGAAAAGGTTGCTTGGACCCGCAAACTCTGGGCTATCACGGACAGATGCCCCCGGAAGCATCCGAGCCCTCTTTGGGACAGATGGCGTGAGAAATGCAGCTCACGGCCCTGATACTTTTGCATCTGCTGCCAGAGAAATGGAATTGTTTTTTCCTTCAAGTGGAGGCTGTGGGCCAGCGAACACTGCTAAATTTACCAATTGCACCTGTTGCATCATTAAGCCTCATGCTATCAGTGAAGGAATGTTGGGAAAGATTTTAATAGCTATTCGGGATGCATGCTTTGGAATGTCAGCGATACAGATGTTCAATTTGGATCGGGCTAATGTTGAAGAATTCTATGAAGTCTATAAAGGTGTAGTGTCTGAGTATAATGATATGGTGACAGAGCTGTGCTCCGGCCCTTGCGTAGCAATAGAGATCCAACAGAGCAACCCTACAAAGACATTTCGAGAATTCTGCGGACCTGCTGATCCTCATGATGTAAAGAATCGTCGCACCTTCTTAAAGCGGACCAAGTATGAGGACCTGCGCCTGGAAGATCTATTTATAGGCAACAAAGTCAATGTGTTTTCTCGACAGCTGGTGTTGATTGACTATGGGGACCAATACACAGCCCGCCAGCTGGGCAGCAGGAAAGAGAAAACTTTAGCCCTGATCAAACCAGATGCAGTGTCAAAGGCCGGAGAAATCATTGAGATGATAAACAAAAGTGGATTTACTATAACCAAACTCCGAATGATGACTCTGACAAGGAAAGAAGCAGCGGACTTTCATGTAGACCATCACTCAAGACCTTTTTATAACGAACTGATCCAGTTTATCACAAGTGGGCCTGTTATTGCCATGGAGATCTTAAGAGATGACGCGATCTGTGAGTGGAAAAGGTTGCTTGGACCCGCAAACTCTGGGCTATCACGGACAGATGCCCCCGGAAGCATCCGAGCCCTCTTTGGGACAGATGGCGTGAGAAATGCAGCTCACGGCCCTGATACTTTTGCATCTGCTGCCAGAGAAATGGAATTGTTTTTTCCTTCAAGTGGAGGCTGTGGGCCAGCGAACACTGCTAAATTTACCAATTGCACCTGTTGCATCATTAAGCCTCATGCTATCAGTGAAGGAATGTTGGGAAAGATTTTAATAGCTATTCGGGATGCATGCTTTGGAATGTCAGCGATACAGATGTTCAATTTGGATCGGGCTAATGTTGAAGAATTCTATGAAGTCTATAAAGGTGTAGTGTCTGAGTATAATGATATGGTGACAGAGCTGTGCTCCGGCCCTTGCGTAGCAATAGAGATCCAACAGAGCAACCCTACAAAGACATTTCGAGAATTCTGCGGACCTGCTGATCCT
Peptide sequence:
MINKSGFTITKLRMMTLTRKEAADFHVDHHSRPFYNELIQFITSGPVIAMEILRDDAICEWKRLLGPANSGLSRTDAPGSIRALFGTDGVRNAAHGPDTFASAAREMELFFPSSGGCGPANTAKFTNCTCCIIKPHAISEGMLGKILIAIRDACFGMSAIQMFNLDRANVEEFYEVYKGVVSEYNDMVTELCSGPCVAIEIQQSNPTKTFREFCGPADPHDVKNRRTFLKRTKYEDLRLEDLFIGNKVNVFSRQLVLIDYGDQYTARQLGSRKEKTLALIKPDAVSKAGEIIEMINKSGFTITKLRMMTLTRKEAADFHVDHHSRPFYNELIQFITSGPVIAMEILRDDAICEWKRLLGPANSGLSRTDAPGSIRALFGTDGVRNAAHGPDTFASAAREMELFFPSSGGCGPANTAKFTNCTCCIIKPHAISEGMLGKILIAIRDACFGMSAIQMFNLDRANVEEFYEVYKGVVSEYNDMVTELCSGPCVAIEIQQSNPTKTFREFCGPADP
IRESfinder result
IRESfinder score
0.482483342
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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