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mmu_circZbtb20_946
Basic information of circular RNA
PanCircBase ID:
mmu_circZbtb20_946
mm39_Chr. Position ID:
chr16|42827380|43398111|+
Gene name:
Zbtb20
Transcript:
ENSMUST00000114694.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12,13
Exon/intron offsets:
0,17920,65406,139879,186447,225741,295551,455929,562663,564716,570012,570543
Genomic length:
570731
Exon/intron sizes in nt:
69,50,46,47,74,62,47,40,00,00,00,00,000
Flanking exon/introns:
chr16:42728084-42827380|chr16:43398111-43429689
Splice length:
946
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TGGATGACACACCTGTTTGTGTTATTGTGCCAATAATATGCAGTTTTTTGAAGAATAATATCATTCAAGATAACTGAATGGAGTGTTTGAATTGCGCTTTGCGACTCTGAAGGCTGAAGAGTTCTTGATAAATTGCAAGTCTCTTTGTGCCTCATAGCTGCACAGGAATGGCTGTTTGATATTGGAAAACCAGTTGGTGTGCTCTTCCTTGGACTGCCTGAAGTTACATTTTGAGACTGAAATCACTGCACCTTAAAAACAAAAGATTGGGCTGCACTGTGTTCCTGTGTTTCCTTATAATAACAACTTCAGCCATATTATAAACATCTTCGAAAGAAAACTTCCAAGACTCTTTTATCATCAGCAATTGAATATTTCACACAACTTGCTGGCTGTCCCTTGACCACCAGTCTGTTGCCTGTTGCTGCTCTTCATATGCAGCCACTCTCTGTCCCCTGCCCCAATGAACATCTGCACTAGGCCCAAGCCTTGGAGTGATTTACCTGAAGAGTGACACCAATTATCTGGAAACTACTAAAGTATAATTGAGAGGAACAGGGTGAAGGAAATGCAAATGCGAAAGGGAAGCAGTAGATGAGGAAACTGAAGCCCAGAGAAGTGAAGTGAGGTGCCCAAAGCCACACAGCAAGTTGCAGGCACAGCTAGTTCCGTAGCTCAAGTCTCCTGACTCCCAGTCCAGTGTTCTTCCCATTACTCCACGGGTCCTGTCTCTAAGCTTCCTGACAAATGCTAGAACGGAAGAAACCCAAGACAGCTGAAAACCAGAAGGCATCTGAGGAGAATGAGATTACTCAGCCGGGCGGATCCAGCGCCAAGCCGGCCCTTCCCTGCCTGAACTTTGAAGCTGTTTTGTCTCCAGCCCCAGCCCTCATCCACTCGACACATTCACTGACAAACTCTCACGCTCACACCGGGTCATCTGATT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTTTGTCTCCAGCCCCAG
60.18
AGCGCAATTCAAACACTCCA
58.68
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGTTTTGTCTCCAGCCCCA
60.18
AGCGCAATTCAAACACTCCA
58.68
179
PCR template sequence:
CCCTGCCTGAACTTTGAAGCTGTTTTGTCTCCAGCCCCAGCCCTCATCCACTCGACACATTCACTGACAAACTCTCACGCTCACACCGGGTCATCTGATTTGGATGACACACCTGTTTGTGTTATTGTGCCAATAATATGCAGTTTTTTGAAGAATAATATCATTCAAGATAACTGAATGGAGTGTTTGAATTGCGCTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-211-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-18a-5p(1), mmu-miR-326-3p(1), mmu-miR-10a-5p(1), mmu-miR-214-3p(1), mmu-miR-128-3p(1), mmu-miR-136-5p(1), mmu-miR-96-5p(1), mmu-miR-382-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGGTCATCTGATTTGGATGACACACC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZBTB20_946_ORF_1
1.0731
0.093455347
0.285379347
276
ORF sequence:
ATGCTAGAACGGAAGAAACCCAAGACAGCTGAAAACCAGAAGGCATCTGAGGAGAATGAGATTACTCAGCCGGGCGGATCCAGCGCCAAGCCGGCCCTTCCCTGCCTGAACTTTGAAGCTGTTTTGTCTCCAGCCCCAGCCCTCATCCACTCGACACATTCACTGACAAACTCTCACGCTCACACCGGGTCATCTGATTTGGATGACACACCTGTTTGTGTTATTGTGCCAATAATATGCAGTTTTTTGAAGAATAATATCATTCAAGATAACTGA
Peptide sequence:
MLERKKPKTAENQKASEENEITQPGGSSAKPALPCLNFEAVLSPAPALIHSTHSLTNSHAHTGSSDLDDTPVCVIVPIICSFLKNNIIQDN
IRESfinder result
IRESfinder score
0.738013995
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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