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mmu_circIftap_297
Basic information of circular RNA
PanCircBase ID:
mmu_circIftap_297
mm39_Chr. Position ID:
chr2|101413865|101416814|-
Gene name:
Iftap
Transcript:
ENSMUST00000111231.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,1723,2791
Genomic length:
2949
Exon/intron sizes in nt:
67,72,158
Flanking exon/introns:
chr2:101406496-101413865|chr2:101416814-101440868
Splice length:
297
Other database IDs:
circAtlas: mmu-B230118H07Rik_0003
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_4269
Human Ortholog IDs:
Mature spliced Sequence:
AGGATAATGTGGCCAAATGGGGAGCACATGGAACTGATTCATCAGAAAATATATTTTCTACTGTAAAATGGAATCATAAAACTGAATCAAATGGTCGTCATTTTAGAAATACATCCATCTTTCTTCACACTTCATCGGAACACTCAGAAGAGGACCAGATTGTGATTGATGAAGGCCACAAAGTTGGGAGTTCCTTTCAAGGTGATATGACCCGGGCTGGAAAGGTGAAGGTAGACAACTTCCTAGACTTAGAAGATGTGGACATGGAGGAAGAGAGTAAGCCCCAGATGAACAAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGGTGATATGACCCGGGC
60.54
GAATCAGTTCCATGTGCTCCC
58.98
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGGTGATATGACCCGGGC
60.54
TGAATCAGTTCCATGTGCTCCC
60.62
141
PCR template sequence:
CAAGGTGATATGACCCGGGCTGGAAAGGTGAAGGTAGACAACTTCCTAGACTTAGAAGATGTGGACATGGAGGAAGAGAGTAAGCCCCAGATGAACAAGGAGGATAATGTGGCCAAATGGGGAGCACATGGAACTGATTCATCAGAAAATATATTTTCTACTGTAAAATGGAATCATAAAACTGAATCAAATGGTCGTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-150-5p(1), mmu-miR-205-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGATGAACAAGGAGGATAATGTGGC
siRNA sets
TATCCTCCTTGTTCATCTG, TTATCCTCCTTGTTCATCT, ATTATCCTCCTTGTTCATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIFTAP_297_ORF_1
1.1649
0.293685055
0.71151886
387
ORF sequence:
ATGACCCGGGCTGGAAAGGTGAAGGTAGACAACTTCCTAGACTTAGAAGATGTGGACATGGAGGAAGAGAGTAAGCCCCAGATGAACAAGGAGGATAATGTGGCCAAATGGGGAGCACATGGAACTGATTCATCAGAAAATATATTTTCTACTGTAAAATGGAATCATAAAACTGAATCAAATGGTCGTCATTTTAGAAATACATCCATCTTTCTTCACACTTCATCGGAACACTCAGAAGAGGACCAGATTGTGATTGATGAAGGCCACAAAGTTGGGAGTTCCTTTCAAGGTGATATGACCCGGGCTGGAAAGGTGAAGGTAGACAACTTCCTAGACTTAGAAGATGTGGACATGGAGGAAGAGAGTAAGCCCCAGATGAACAAG
Peptide sequence:
MTRAGKVKVDNFLDLEDVDMEEESKPQMNKEDNVAKWGAHGTDSSENIFSTVKWNHKTESNGRHFRNTSIFLHTSSEHSEEDQIVIDEGHKVGSSFQGDMTRAGKVKVDNFLDLEDVDMEEESKPQMNK
IRESfinder result
IRESfinder score
0.57724268
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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