top of page
mmu_circGtf2i_495
Basic information of circular RNA
PanCircBase ID:
mmu_circGtf2i_495
mm39_Chr. Position ID:
chr5|134289420|134295510|-
Gene name:
Gtf2i
Transcript:
ENSMUST00000059042.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
17,16,15,14,13
Exon/intron offsets:
0,1276,3018,5170,5976
Genomic length:
6090
Exon/intron sizes in nt:
7,25,91,84,66,114
Flanking exon/introns:
chr5:134284862-134289420|chr5:134295510-134301377
Splice length:
495
Other database IDs:
circAtlas: mmu-Gtf2i_0020
CIRCpedia: HSA_CIRCpedia_97818
Human Ortholog IDs:
Mature spliced Sequence:
ATGATGACTATTCTCCACCCACCAAGAGGCTAAAGAGCACGGAGCCGCCCCCGCCCCCGCCCGTCCCGGAGCCCGCCAACGCTGGCAAGCGCAAAGTGAGGGAGTTCAACTTTGAGAAATGGAACGCACGCATCACTGACCTACGGAAACAAGTTGAAGAGTTGTTCGAAAGAAAATATGCTCAAGCCATCAAAGCCAAAGGCCCGGTGACGATCCCGTACCCTCTTTTCCAGTCCCATGTTGAAGATCTTTACGTAGAAGGGCTTCCTGAAGGGATTCCTTTTAGAAGGCCGTCGACGTACGGCATTCCTCGCCTTGAGAGGATATTGCTGGCGAAGGAAAGGATCCGCTTCGTGATTAAGAAACATGAGCTTCTGAACTCAACACGAGAAGATTTACAGCTTGATAAACCAGCCTCAGGAGTGAAAGAAGAGTGGTACGCTCGCATCACCAAACTGAGGAAGATGGTTGACCAGCTCTTCTGCAAGAAATTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TACGCTCGCATCACCAAACT
60.04
CTCACTTTGCGCTTGCCAG
60.08
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTACGCTCGCATCACCAAAC
59.91
CTCACTTTGCGCTTGCCAG
60.08
159
PCR template sequence:
TTACAGCTTGATAAACCAGCCTCAGGAGTGAAAGAAGAGTGGTACGCTCGCATCACCAAACTGAGGAAGATGGTTGACCAGCTCTTCTGCAAGAAATTTGATGATGACTATTCTCCACCCACCAAGAGGCTAAAGAGCACGGAGCCGCCCCCGCCCCCGCCCGTCCCGGAGCCCGCCAACGCTGGCAAGCGCAAAGTGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
TGCAAGAAATTTGATGATGACTATTC
siRNA sets
ATAGTCATCATCAAATTTC, TAGTCATCATCAAATTTCT, AATAGTCATCATCAAATTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGTF2I_495_ORF_1
1.142
0.345376186
0.886766057
525
ORF sequence:
ATGGTTGACCAGCTCTTCTGCAAGAAATTTGATGATGACTATTCTCCACCCACCAAGAGGCTAAAGAGCACGGAGCCGCCCCCGCCCCCGCCCGTCCCGGAGCCCGCCAACGCTGGCAAGCGCAAAGTGAGGGAGTTCAACTTTGAGAAATGGAACGCACGCATCACTGACCTACGGAAACAAGTTGAAGAGTTGTTCGAAAGAAAATATGCTCAAGCCATCAAAGCCAAAGGCCCGGTGACGATCCCGTACCCTCTTTTCCAGTCCCATGTTGAAGATCTTTACGTAGAAGGGCTTCCTGAAGGGATTCCTTTTAGAAGGCCGTCGACGTACGGCATTCCTCGCCTTGAGAGGATATTGCTGGCGAAGGAAAGGATCCGCTTCGTGATTAAGAAACATGAGCTTCTGAACTCAACACGAGAAGATTTACAGCTTGATAAACCAGCCTCAGGAGTGAAAGAAGAGTGGTACGCTCGCATCACCAAACTGAGGAAGATGGTTGACCAGCTCTTCTGCAAGAAATTT
Peptide sequence:
MVDQLFCKKFDDDYSPPTKRLKSTEPPPPPPVPEPANAGKRKVREFNFEKWNARITDLRKQVEELFERKYAQAIKAKGPVTIPYPLFQSHVEDLYVEGLPEGIPFRRPSTYGIPRLERILLAKERIRFVIKKHELLNSTREDLQLDKPASGVKEEWYARITKLRKMVDQLFCKKF
IRESfinder result
IRESfinder score
0.30816661
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page