top of page
mmu_ciTaf5_1373
Basic information of circular RNA
PanCircBase ID:
mmu_ciTaf5_1373
mm39_Chr. Position ID:
chr19|47065833|47067206|+
Gene name:
Taf5
Transcript:
ENSMUST00000026027.7
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
1373
Exon/intron sizes in nt:
1373
Flanking exon/introns:
chr19:47065833-47067206
Splice length:
1373
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAACTGAGATGACCTATGATATAAACTTGAAATTAGTCTACATCAGTTTGATTTTATAGAATTTAGATAGGAAATTGTGATCTTTGCAGAAGTGATTTCTCTTGAATTCCGGGGTTACAGCCTGGTGGTTTAGGCCTGTGATAACAAACACCTTAGGAGGATGAGACAGGAGGATGAGAATTCAAGGACTGGGCAGGTGAGATGATGGCTCATTGCTGCCAGGCCTGATGCCCTGACTTCAATTCCGTGGAACCCACACGTGGGAGAGAACCGCCTCCTAAAAGTTGTCCTCTGACCTCCCTACATGTGCTAGGCATGTGTACGTCTACGTATGCACAGACACTAAACAGTGTTTAAAAGGAGTGAGTTTAAGGGCTTGCCTAGACTGCAGAGTGAATTCAAGGCCAGCCGCAAACCTTAAATGAACTGTCTCAAACCAAGATAACATTTCCAATAAGTAAAAGAGCCTTTGAGGGTGGCAATGATGATTCCATTGGCCCCCAGTTCTCTCACGGATAAAATGAAGCTTTAAAGTTAAAACTGATATTAGATGACTATTTGCCTATACATTTTATGAAAACCTTAGTGAGACTTGGCAGGGCCTTACTAAACCTTAGTAACTCAGCAAATAAGGCAAATGATTGCCACCAGACCTGCAAACTTGAGTTCAATGTCTACAACCTGCGTGGTTGAAGAGAACCGACCCTACAGGTTGTTCTCTGACATCTACCTGTGTGTGATGGCACGCATGCTCAGATTCACGTTCATACAAGGGCTGAGGCAGAAGGATCACTGTAAGTTCAAAGTATCCTAAGCTACACAGTGAAGACTCTCAAAACTCACAACAAGGGGCTGAATACATGACTCTGGTTGCGAGCACTGACCATTTTGCAGAGGACCTGGGTAAGATTTCCACCACCAGCCATCACTCTAGTTCCGGGGCACCAACACATGCATGTGGTACATGCATATGCATGCACGTAAAACATTGGTACATATAAAATTAACAAAAGGCAAACCAAAAAGACCAAACTTGTAATAAGGTCAGGACTTTAAATGCTTTTTGATAGCTATTTTTCCTAAACAGTATGTTTACATTGTTTTAGGATTTGTATAGTTTCTTTTTTATAAAATGTAGCATAGTGGACAGACTAAAGAATTAGTCCTGGTTTTCACACTGAGTAACTGTGTGGTCTAGCAGATTATTAACTTTTTAAGACTCATTTTCTTCTATACAAGGGACTTATTTCACTTATTTTAGCTGTAGTATAGTGTTGTTGCTACAGAGGAAGAAACGTTGAAATGTTAGTTCTGAACTATGACGCATTGCCTTAAATAATATAACTAAAATAATATTTCTGGACCTTTTTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGAACTATGACGCATTGCCT
60.09
TCACTTCTGCAAAGATCACAA
55.74
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGAACTATGACGCATTGCC
58.72
TCACTTCTGCAAAGATCACAA
55.74
158
PCR template sequence:
TGTTGTTGCTACAGAGGAAGAAACGTTGAAATGTTAGTTCTGAACTATGACGCATTGCCTTAAATAATATAACTAAAATAATATTTCTGGACCTTTTTAGGTAACTGAGATGACCTATGATATAAACTTGAAATTAGTCTACATCAGTTTGATTTTATAGAATTTAGATAGGAAATTGTGATCTTTGCAGAAGTGATTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-221-3p(1), mmu-miR-30e-5p(1), mmu-miR-146a-5p(1), mmu-miR-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-138-5p(1), mmu-miR-30b-5p(1), mmu-miR-297a-5p(1), mmu-miR-377-3p(1), mmu-miR-539-5p(1), mmu-miR-3470b(1), mmu-miR-540-3p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGACCTTTTTAGGTAACTGAGATGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.735006859
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page