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mmu_circGspt1_337_2
Basic information of circular RNA
PanCircBase ID:
mmu_circGspt1_337_2
mm39_Chr. Position ID:
chr16|11055394|11058704|-
Gene name:
Gspt1
Transcript:
ENSMUST00000167571.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,4,3,2
Exon/intron offsets:
0,1341,3135,3274
Genomic length:
3310
Exon/intron sizes in nt:
34,225,42,36
Flanking exon/introns:
chr16:11053307-11055394|chr16:11058704-11071506
Splice length:
337
Other database IDs:
circAtlas: mmu-Gspt1_0001
circBase: hsa_circ_0037911, circAtlas: hsa-GSPT1_0001, CIRCpedia: HSA_CIRCpedia_16360
Human Ortholog IDs:
Mature spliced Sequence:
AACCTGTAGAGTCCTCTCAAGACCAGTCGTGTGAAGGTTCAAATTCTACTGTTAGCATGGAACTTTCAGAACCTGTTGAAAATGGAGAGACAGAAATGTCCCCAGAAGAATCATGGGAGCACAAAGAAGAAATAAGTGAAGCGGAGCCAGGGGGTGGTTCCTCAGGAGATGGAAGGCCACCAGAGGAAAGCACCCAAGAAATGATGGAGGAGGAGGAAGAAATACCGAAACCTAAGTCAGCGGTGGCACCACCAGGTGCTCCCAAGAAGGAACATGTAAATGTAGTGTTCATCGGACATGTTGATGCAGGCAAGTCAACCATTGGAGGACAAATAAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGCTCCCAAGAAGGAACA
59.89
ACAGGTTCTGAAAGTTCCATGC
59.11
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGCTCCCAAGAAGGAACA
59.89
CAGGTTCTGAAAGTTCCATGCT
58.85
158
PCR template sequence:
CAGCGGTGGCACCACCAGGTGCTCCCAAGAAGGAACATGTAAATGTAGTGTTCATCGGACATGTTGATGCAGGCAAGTCAACCATTGGAGGACAAATAATAACCTGTAGAGTCCTCTCAAGACCAGTCGTGTGAAGGTTCAAATTCTACTGTTAGCATGGAACTTTCAGAACCTGTTGAAAATGGAGAGACAGAAATGTC
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-149-5p(1), mmu-miR-434-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGGACAAATAATAACCTGTAGAGTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGSPT1_337_2_ORF_1
1.0988
0.156818798
0.425269006
315
ORF sequence:
ATGGAACTTTCAGAACCTGTTGAAAATGGAGAGACAGAAATGTCCCCAGAAGAATCATGGGAGCACAAAGAAGAAATAAGTGAAGCGGAGCCAGGGGGTGGTTCCTCAGGAGATGGAAGGCCACCAGAGGAAAGCACCCAAGAAATGATGGAGGAGGAGGAAGAAATACCGAAACCTAAGTCAGCGGTGGCACCACCAGGTGCTCCCAAGAAGGAACATGTAAATGTAGTGTTCATCGGACATGTTGATGCAGGCAAGTCAACCATTGGAGGACAAATAATAACCTGTAGAGTCCTCTCAAGACCAGTCGTGTGA
Peptide sequence:
MELSEPVENGETEMSPEESWEHKEEISEAEPGGGSSGDGRPPEESTQEMMEEEEEIPKPKSAVAPPGAPKKEHVNVVFIGHVDAGKSTIGGQIITCRVLSRPVV
IRESfinder result
IRESfinder score
0.351012634
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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