top of page
mmu_circTerb1_1143
Basic information of circular RNA
PanCircBase ID:
mmu_circTerb1_1143
mm39_Chr. Position ID:
chr8|105210908|105234478|-
Gene name:
Terb1
Transcript:
ENSMUST00000064576.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
12,11,10,9,8,7,6,5,4,3
Exon/intron offsets:
0,1080,4210,10593,10810,11025,12495,13690,14216,23513
Genomic length:
23570
Exon/intron sizes in nt:
126,135,153,123,116,61,132,129,111,57
Flanking exon/introns:
chr8:105208959-105210908|chr8:105234478-105235898
Splice length:
1143
Other database IDs:
circAtlas: mmu-Ccdc79_0010
circAtlas: hsa-TERB1_0017
Human Ortholog IDs:
Mature spliced Sequence:
ATGAAATATAAGGGAAAAAGACAAGCATGGAAAGTGAGAAGCCAAAGAAAACACAAGAAATGAAGACTGACCTGAAGTTACTGTTGGAATGTCTGAAGTATCACATGGGCAACCCTTTGTCACAAAAGGAAGTTTTGATCACGATTCATTCAGTTTGTAAACAAAACAGTGATGCAGGTATTTATTTCCGGGAAATTGGTGGTTTGATGTTTATAATAAACCTTGCAAAGTCAAGTGAGCAGAGCTTGGTAAAAGAAGCAGCCTTATACACATTAGGATCTATTGCAGAAGAAAATGTTTACTGTCAGCAATCTTTGTGTACTTCAGAATTATTTCAAGATTTAACCGGGCTCTTAACTAATGATGATTCAAACACAAATTTGAAAAGAATGTCTGTCTATGTTCTTTTGGTTCTGGTTTCAAATAATAGAAATGGACAAACTCTTGTGAGAGAAGTGGGTTGTATTGAAGTTCTGTCACAGATGTTCAGGACAGTTCTTTCCAATTATGAGTTGAATTTGTCAGATAATAGTGTTTTCCAGAGCTATCTGCTATGGTCGTCTGTGTGCAGTACTCTGTGTGTATGTGTCAACAATCCTCAAAATGATGAGAATCAAATGCTTTGTTGTTCACTTTTTCCATGTGTTAATGAATGGCTAATGAACTGCATGAGACCTGAGGTAATTCGACCTATATGCTCATTTATTGGACTTACTCTTGCAAATAATACACACGCTCAGAACTGCTTTGTCTCTTCGGGTGGACTGGATGTTTTGTGTCAAGTTCTTGTGCAGCTGGAGTCTGATTCACACAATACTCTTTCCAGTGCTAAGCTTGCAGTCATAGTGACAAAGACCATGGATGCATGTATTACTGATAACTCAGCTGCTTTTACAGTGGTATTATCCAAGTACCACATTGTTTCTACACTTCTGGCATTACTGCTTCATGAAAGTCTTGATTCAAGAGAAAAATTTAGCATCATACTTGCCATTGGTCACTGCACAGAGGATTGTGAGAAAAATCAGTATGAACTTTTAAAAAACAATGGGCTTCCATTGATGATACAAGCCTTAACTGAGTTTAAGAATGAAGACCTAAGCAAAGCTGCCACTTACGTGCTTCACAACTGCAAAAAAATTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGCTTCCATTGATGATACAAGC
59.99
TTTGGCTTCTCACTTTCCATGC
59.7
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGCTTCCATTGATGATACA
57.05
TTGGCTTCTCACTTTCCATGC
59.11
140
PCR template sequence:
AACAATGGGCTTCCATTGATGATACAAGCCTTAACTGAGTTTAAGAATGAAGACCTAAGCAAAGCTGCCACTTACGTGCTTCACAACTGCAAAAAAATTAATGAAATATAAGGGAAAAAGACAAGCATGGAAAGTGAGAAGCCAAAGAAAACACAAGAAATGAAGACTGACCTGAAGTTACTGTTGGAATGTCTGAAGTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-185-5p(1), mmu-miR-30d-5p(1), mmu-miR-466d-3p(1), mmu-miR-129-5p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCAAAAAAATTAATGAAATATAAGG
siRNA sets
TATTTCATTAATTTTTTTG,TTATATTTCATTAATTTTT,TTTCATTAATTTTTTTGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTERB1_1143_ORF_1
0.8401
-0.107850334
0.981381718
1128
ORF sequence:
ATGGAAAGTGAGAAGCCAAAGAAAACACAAGAAATGAAGACTGACCTGAAGTTACTGTTGGAATGTCTGAAGTATCACATGGGCAACCCTTTGTCACAAAAGGAAGTTTTGATCACGATTCATTCAGTTTGTAAACAAAACAGTGATGCAGGTATTTATTTCCGGGAAATTGGTGGTTTGATGTTTATAATAAACCTTGCAAAGTCAAGTGAGCAGAGCTTGGTAAAAGAAGCAGCCTTATACACATTAGGATCTATTGCAGAAGAAAATGTTTACTGTCAGCAATCTTTGTGTACTTCAGAATTATTTCAAGATTTAACCGGGCTCTTAACTAATGATGATTCAAACACAAATTTGAAAAGAATGTCTGTCTATGTTCTTTTGGTTCTGGTTTCAAATAATAGAAATGGACAAACTCTTGTGAGAGAAGTGGGTTGTATTGAAGTTCTGTCACAGATGTTCAGGACAGTTCTTTCCAATTATGAGTTGAATTTGTCAGATAATAGTGTTTTCCAGAGCTATCTGCTATGGTCGTCTGTGTGCAGTACTCTGTGTGTATGTGTCAACAATCCTCAAAATGATGAGAATCAAATGCTTTGTTGTTCACTTTTTCCATGTGTTAATGAATGGCTAATGAACTGCATGAGACCTGAGGTAATTCGACCTATATGCTCATTTATTGGACTTACTCTTGCAAATAATACACACGCTCAGAACTGCTTTGTCTCTTCGGGTGGACTGGATGTTTTGTGTCAAGTTCTTGTGCAGCTGGAGTCTGATTCACACAATACTCTTTCCAGTGCTAAGCTTGCAGTCATAGTGACAAAGACCATGGATGCATGTATTACTGATAACTCAGCTGCTTTTACAGTGGTATTATCCAAGTACCACATTGTTTCTACACTTCTGGCATTACTGCTTCATGAAAGTCTTGATTCAAGAGAAAAATTTAGCATCATACTTGCCATTGGTCACTGCACAGAGGATTGTGAGAAAAATCAGTATGAACTTTTAAAAAACAATGGGCTTCCATTGATGATACAAGCCTTAACTGAGTTTAAGAATGAAGACCTAAGCAAAGCTGCCACTTACGTGCTTCACAACTGCAAAAAAATTAATGAAATATAA
Peptide sequence:
MESEKPKKTQEMKTDLKLLLECLKYHMGNPLSQKEVLITIHSVCKQNSDAGIYFREIGGLMFIINLAKSSEQSLVKEAALYTLGSIAEENVYCQQSLCTSELFQDLTGLLTNDDSNTNLKRMSVYVLLVLVSNNRNGQTLVREVGCIEVLSQMFRTVLSNYELNLSDNSVFQSYLLWSSVCSTLCVCVNNPQNDENQMLCCSLFPCVNEWLMNCMRPEVIRPICSFIGLTLANNTHAQNCFVSSGGLDVLCQVLVQLESDSHNTLSSAKLAVIVTKTMDACITDNSAAFTVVLSKYHIVSTLLALLLHESLDSREKFSIILAIGHCTEDCEKNQYELLKNNGLPLMIQALTEFKNEDLSKAATYVLHNCKKINEI
IRESfinder result
IRESfinder score
0.824123155
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page