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mmu_circUbtf_276
Basic information of circular RNA
PanCircBase ID:
mmu_circUbtf_276
mm39_Chr. Position ID:
chr11|102201016|102201402|-
Gene name:
Ubtf
Transcript:
ENSMUST00000174302.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
10,9
Exon/intron offsets:
0,252
Genomic length:
386
Exon/intron sizes in nt:
1,42,134
Flanking exon/introns:
chr11:102200735-102201016|chr11:102201402-102201751
Splice length:
276
Other database IDs:
circAtlas: mmu-Ubtf_0001
circBase: hsa_circ_0044048, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_20987
Human Ortholog IDs:
Mature spliced Sequence:
GAGATTATGCGGGACTATATCCAGAAGCACCCTGAGCTGAACATCAGTGAGGAAGGCATCACCAAGTCCACCCTCACCAAGGCCGAGCGCCAGCTCAAGGACAAGTTCGATGGGCGACCTACCAAGCCGCCTCCGAACAGCTACTCCCTGTACTGTGCGGAGCTCATGGCCAACATGAAGGATGTGCCCAGCACAGAGCGCATGGTGCTATGCAGCCAGCAATGGAAGCTGCTCTCTCAGAAGGAGAAGGATGCCTATCACAAGAAATGTGACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAATGGAAGCTGCTCTCT
59.38
CTTGGTGAGGGTGGACTTGG
60.25
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAATGGAAGCTGCTCTCT
59.38
CCTTGGTGAGGGTGGACTTG
60.25
141
PCR template sequence:
GAAGGATGTGCCCAGCACAGAGCGCATGGTGCTATGCAGCCAGCAATGGAAGCTGCTCTCTCAGAAGGAGAAGGATGCCTATCACAAGAAATGTGACCAGGAGATTATGCGGGACTATATCCAGAAGCACCCTGAGCTGAACATCAGTGAGGAAGGCATCACCAAGTCCACCCTCACCAAGGCCGAGCGCCAGCTCAAGG
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-23b-3p(1), mmu-miR-101a-3p(1), mmu-miR-29b-3p(1), mmu-miR-23a-3p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
GAAATGTGACCAGGAGATTATGCGGG
siRNA sets
TAATCTCCTGGTCACATTT, ATAATCTCCTGGTCACATT, AATCTCCTGGTCACATTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUBTF_276_ORF_1
1.0993
0.637656539
0.965626207
546
ORF sequence:
ATGCGGGACTATATCCAGAAGCACCCTGAGCTGAACATCAGTGAGGAAGGCATCACCAAGTCCACCCTCACCAAGGCCGAGCGCCAGCTCAAGGACAAGTTCGATGGGCGACCTACCAAGCCGCCTCCGAACAGCTACTCCCTGTACTGTGCGGAGCTCATGGCCAACATGAAGGATGTGCCCAGCACAGAGCGCATGGTGCTATGCAGCCAGCAATGGAAGCTGCTCTCTCAGAAGGAGAAGGATGCCTATCACAAGAAATGTGACCAGGAGATTATGCGGGACTATATCCAGAAGCACCCTGAGCTGAACATCAGTGAGGAAGGCATCACCAAGTCCACCCTCACCAAGGCCGAGCGCCAGCTCAAGGACAAGTTCGATGGGCGACCTACCAAGCCGCCTCCGAACAGCTACTCCCTGTACTGTGCGGAGCTCATGGCCAACATGAAGGATGTGCCCAGCACAGAGCGCATGGTGCTATGCAGCCAGCAATGGAAGCTGCTCTCTCAGAAGGAGAAGGATGCCTATCACAAGAAATGTGACCAG
Peptide sequence:
MRDYIQKHPELNISEEGITKSTLTKAERQLKDKFDGRPTKPPPNSYSLYCAELMANMKDVPSTERMVLCSQQWKLLSQKEKDAYHKKCDQEIMRDYIQKHPELNISEEGITKSTLTKAERQLKDKFDGRPTKPPPNSYSLYCAELMANMKDVPSTERMVLCSQQWKLLSQKEKDAYHKKCDQ
IRESfinder result
IRESfinder score
0.141919485
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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