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mmu_circZranb3_1543
Basic information of circular RNA
PanCircBase ID:
mmu_circZranb3_1543
mm39_Chr. Position ID:
chr1|127915733|128019747|-
Gene name:
Zranb3
Transcript:
ENSMUST00000086614.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,4803,8856,11344,28046,29561,44852,48401,52821,69985,103846
Genomic length:
104014
Exon/intron sizes in nt:
15,01,80,12,01,20,11,70,00,00,00,00,00,00,000
Flanking exon/introns:
chr1:127904281-127915733|chr1:128019747-128029989
Splice length:
1543
Other database IDs:
circAtlas: mmu-Zranb3_0018
Human Ortholog IDs:
Mature spliced Sequence:
GCTCACCATGCCTACAGCTGGTAGCAAGAAGAAGGCTCCCACACCGCAGATTTCTTGTTTAACAAGCGAATCATATACACAGCTGGATTTTTTACCGGACAAGCTTAGAACAAAACTGCTTCCGTTCCAAAAAGATGGCATCGTTTTTGCCCTCAGAAGAGATGGCAGGTGTATGGTGGCTGATGAAATGGGTCTAGGAAAGACAATCCAGGCGATTGCAATTGCTTACTTCTACAAAGAGGAGTGGCCCCTGCTGATAGTCGTCCCTTCATCTCTAAGATACCCTTGGATAGAAGAACTAGAAAAATGGATCCCAGAGCTAGAGCCAGAGGAAATCAATGTCGTCATGAACAAAACTGACATTGGGAGAATCCCGGGCAGCAGAGTGACAGTTCTGGGCTACGGTCTCTTAACCACAGATGCAGAGACTTTGCTGGATGCACTGAACACGCAGAACTTCAGGGTCGTGATAGTGGATGAGTCACACTACATGAAGTCCAGAACTGCTGCCCGCAGCAAGATTCTCCTGCCCATGGTGCAGAAGGCCAGGAGAGCCATTCTTCTTACAGGAACCCCAGCTCTGGGAAGGCCTGAGGAGCTTTTCATGCAGATTGAGGCTCTTTTCCCACAAAAATTTGGAACTTGGATTGAGTATGCTAAAAGATACTGCAATGCACATGTCAGATACTTTGGCAAAAGGCGTCAGTGGGACTGTAGAGGGGCATCAAACCTTAGTGAGCTTCACCAGCTCCTAAATGACATAATGATCAGAAGACTAAAGAGTGAAGTTTTAAGCCAGCTGCCCCCGAAAGTCAGACAGCGCATTCCCTTTGACCTTCCCCCAGCAGCTGTCAAGGAACTGAATGCCAGCTTTGAAGAATGGCAGAAACTAATGAGAGCTCCAAATTCAGGTGCCATGGAGACGGTTATGGGGTTGATAACACGCATGTTCAAACAGACTGCAATTGCCAAGGCAGGTGCAGTGAAGGACTATATTAAGATGCTGCTTCAGAACGACTCCCTTAAATTTCTGGTCTTTGCGCACCATTTAAGTATGCTCCAGGCTTGCACAGAAGCAGTCATCGAAAGCAAGTCTCGTTACATCAGGATAGATGGAAGTGTTCCATCTTCAGAAAGAATTCATCTGGTTAATCAATTTCAGAAGGACCCCGATACTCGTGTGGCTATCCTGAGCATTCAGGCTGCTGGCCAGGGTTTAACGTTTACTGCTGCGAGTCACGTTGTCTTTGCTGAGTTGTACTGGGACCCTGGACATATCAAACAAGCAGAAGACCGAGCTCACCGAATCGGACAGTGCAGTTCTGTGAATATTCACTACCTTATTGCAAATGGTACTCTGGACAGCCTAATGTGGGCAATGCTGAATCGAAAGGCTCAGGTCACAGGGAGCACACTGAATGGCAGGAAGGAGAAACTCCAGGCTACGGAAGATGACAAGGAGAAGTGGGGTTTTCTGCAGTTTGCTGAAGCATGGACCCCAAGTGACAGTTTTGAAGAGCTCAAGGATTCTGTGTTTACTCAC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGAGAAGTGGGGTTTTCTGC
60.2
AGAAATCTGCGGTGTGGGAG
60.04
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGAAGTGGGGTTTTCTGC
58.75
AGAAATCTGCGGTGTGGGAG
60.04
140
PCR template sequence:
TACGGAAGATGACAAGGAGAAGTGGGGTTTTCTGCAGTTTGCTGAAGCATGGACCCCAAGTGACAGTTTTGAAGAGCTCAAGGATTCTGTGTTTACTCACGCTCACCATGCCTACAGCTGGTAGCAAGAAGAAGGCTCCCACACCGCAGATTTCTTGTTTAACAAGCGAATCATATACACAGCTGGATTTTTTACCGGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
24
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-30e-5p(1), mmu-miR-92a-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-33-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-320-3p(1), mmu-miR-326-3p(1), mmu-miR-143-3p(1), mmu-miR-25-3p(1), mmu-miR-138-5p(1), mmu-miR-139-5p(1), mmu-miR-127-5p(1), mmu-miR-182-5p(1), mmu-miR-666-5p(1), mmu-miR-384-3p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-3470b(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTGTTTACTCACGCTCACCATGCCT
siRNA sets
ATGGTGAGCGTGAGTAAAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZRANB3_1543_ORF_1
0.9559
0.159777635
0.999894057
1668
ORF sequence:
ATGGCAGGAAGGAGAAACTCCAGGCTACGGAAGATGACAAGGAGAAGTGGGGTTTTCTGCAGTTTGCTGAAGCATGGACCCCAAGTGACAGTTTTGAAGAGCTCAAGGATTCTGTGTTTACTCACGCTCACCATGCCTACAGCTGGTAGCAAGAAGAAGGCTCCCACACCGCAGATTTCTTGTTTAACAAGCGAATCATATACACAGCTGGATTTTTTACCGGACAAGCTTAGAACAAAACTGCTTCCGTTCCAAAAAGATGGCATCGTTTTTGCCCTCAGAAGAGATGGCAGGTGTATGGTGGCTGATGAAATGGGTCTAGGAAAGACAATCCAGGCGATTGCAATTGCTTACTTCTACAAAGAGGAGTGGCCCCTGCTGATAGTCGTCCCTTCATCTCTAAGATACCCTTGGATAGAAGAACTAGAAAAATGGATCCCAGAGCTAGAGCCAGAGGAAATCAATGTCGTCATGAACAAAACTGACATTGGGAGAATCCCGGGCAGCAGAGTGACAGTTCTGGGCTACGGTCTCTTAACCACAGATGCAGAGACTTTGCTGGATGCACTGAACACGCAGAACTTCAGGGTCGTGATAGTGGATGAGTCACACTACATGAAGTCCAGAACTGCTGCCCGCAGCAAGATTCTCCTGCCCATGGTGCAGAAGGCCAGGAGAGCCATTCTTCTTACAGGAACCCCAGCTCTGGGAAGGCCTGAGGAGCTTTTCATGCAGATTGAGGCTCTTTTCCCACAAAAATTTGGAACTTGGATTGAGTATGCTAAAAGATACTGCAATGCACATGTCAGATACTTTGGCAAAAGGCGTCAGTGGGACTGTAGAGGGGCATCAAACCTTAGTGAGCTTCACCAGCTCCTAAATGACATAATGATCAGAAGACTAAAGAGTGAAGTTTTAAGCCAGCTGCCCCCGAAAGTCAGACAGCGCATTCCCTTTGACCTTCCCCCAGCAGCTGTCAAGGAACTGAATGCCAGCTTTGAAGAATGGCAGAAACTAATGAGAGCTCCAAATTCAGGTGCCATGGAGACGGTTATGGGGTTGATAACACGCATGTTCAAACAGACTGCAATTGCCAAGGCAGGTGCAGTGAAGGACTATATTAAGATGCTGCTTCAGAACGACTCCCTTAAATTTCTGGTCTTTGCGCACCATTTAAGTATGCTCCAGGCTTGCACAGAAGCAGTCATCGAAAGCAAGTCTCGTTACATCAGGATAGATGGAAGTGTTCCATCTTCAGAAAGAATTCATCTGGTTAATCAATTTCAGAAGGACCCCGATACTCGTGTGGCTATCCTGAGCATTCAGGCTGCTGGCCAGGGTTTAACGTTTACTGCTGCGAGTCACGTTGTCTTTGCTGAGTTGTACTGGGACCCTGGACATATCAAACAAGCAGAAGACCGAGCTCACCGAATCGGACAGTGCAGTTCTGTGAATATTCACTACCTTATTGCAAATGGTACTCTGGACAGCCTAATGTGGGCAATGCTGAATCGAAAGGCTCAGGTCACAGGGAGCACACTGAATGGCAGGAAGGAGAAACTCCAGGCTACGGAAGATGACAAGGAGAAGTGGGGTTTTCTGCAGTTTGCTGAAGCATGGACCCCAAGTGACAGTTTTGAAGAGCTCAAGGATTCTGTGTTTACTCAC
Peptide sequence:
MAGRRNSRLRKMTRRSGVFCSLLKHGPQVTVLKSSRILCLLTLTMPTAGSKKKAPTPQISCLTSESYTQLDFLPDKLRTKLLPFQKDGIVFALRRDGRCMVADEMGLGKTIQAIAIAYFYKEEWPLLIVVPSSLRYPWIEELEKWIPELEPEEINVVMNKTDIGRIPGSRVTVLGYGLLTTDAETLLDALNTQNFRVVIVDESHYMKSRTAARSKILLPMVQKARRAILLTGTPALGRPEELFMQIEALFPQKFGTWIEYAKRYCNAHVRYFGKRRQWDCRGASNLSELHQLLNDIMIRRLKSEVLSQLPPKVRQRIPFDLPPAAVKELNASFEEWQKLMRAPNSGAMETVMGLITRMFKQTAIAKAGAVKDYIKMLLQNDSLKFLVFAHHLSMLQACTEAVIESKSRYIRIDGSVPSSERIHLVNQFQKDPDTRVAILSIQAAGQGLTFTAASHVVFAELYWDPGHIKQAEDRAHRIGQCSSVNIHYLIANGTLDSLMWAMLNRKAQVTGSTLNGRKEKLQATEDDKEKWGFLQFAEAWTPSDSFEELKDSVFTH
IRESfinder result
IRESfinder score
0.519091741
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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