top of page
mmu_circGspt1_448
Basic information of circular RNA
PanCircBase ID:
mmu_circGspt1_448
mm39_Chr. Position ID:
chr16|11048700|11055428|-
Gene name:
Gspt1
Transcript:
ENSMUST00000167571.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,7,6,5
Exon/intron offsets:
0,1695,4529,6694
Genomic length:
6728
Exon/intron sizes in nt:
155,181,78,34
Flanking exon/introns:
chr16:11048514-11048700|chr16:11055428-11056735
Splice length:
448
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
ATGCAGGCAAGTCAACCATTGGAGGACAAATAATGTATTTGACTGGAATGGTCGACAAAAGGACACTTGAGAAGTATGAACGAGAAGCTAAAGAAAAAAACAGAGAAACTTGGTACTTGTCTTGGGCCTTAGACACGAATCAGGAAGAACGAGACAAGGGCAAAACCGTGGAGGTGGGTCGTGCCTATTTTGAAACGGAAAAGAAGCATTTTACAATTCTAGATGCTCCTGGCCATAAGAGTTTTGTCCCAAATATGATTGGTGGTGCCTCTCAAGCTGACTTGGCTGTACTGGTAATCTCAGCCAGGAAAGGAGAGTTTGAAACTGGATTTGAAAAAGGAGGACAGACAAGAGAACATGCAATGTTGGCAAAGACAGCAGGTGTCAAACACTTAATTGTGCTTATTAATAAGATGGATGATCCAACGGTAAACTGGAGCAACGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTGGCAAAGACAGCAGGTG
59.97
TCAAGTGTCCTTTTGTCGACCA
60.09
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTTGGCAAAGACAGCAGGTG
59.97
TCCTTTTGTCGACCATTCCAGT
59.89
147
PCR template sequence:
CAAGAGAACATGCAATGTTGGCAAAGACAGCAGGTGTCAAACACTTAATTGTGCTTATTAATAAGATGGATGATCCAACGGTAAACTGGAGCAACGAGAGATGCAGGCAAGTCAACCATTGGAGGACAAATAATGTATTTGACTGGAATGGTCGACAAAAGGACACTTGAGAAGTATGAACGAGAAGCTAAAGAAAAAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAGCAACGAGAGATGCAGGCAAGTC
siRNA sets
TTGCCTGCATCTCTCGTTG, ACTTGCCTGCATCTCTCGT, TGCCTGCATCTCTCGTTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGSPT1_448_ORF_1
0.9619
0.103543815
0.611877868
486
ORF sequence:
ATGTATTTGACTGGAATGGTCGACAAAAGGACACTTGAGAAGTATGAACGAGAAGCTAAAGAAAAAAACAGAGAAACTTGGTACTTGTCTTGGGCCTTAGACACGAATCAGGAAGAACGAGACAAGGGCAAAACCGTGGAGGTGGGTCGTGCCTATTTTGAAACGGAAAAGAAGCATTTTACAATTCTAGATGCTCCTGGCCATAAGAGTTTTGTCCCAAATATGATTGGTGGTGCCTCTCAAGCTGACTTGGCTGTACTGGTAATCTCAGCCAGGAAAGGAGAGTTTGAAACTGGATTTGAAAAAGGAGGACAGACAAGAGAACATGCAATGTTGGCAAAGACAGCAGGTGTCAAACACTTAATTGTGCTTATTAATAAGATGGATGATCCAACGGTAAACTGGAGCAACGAGAGATGCAGGCAAGTCAACCATTGGAGGACAAATAATGTATTTGACTGGAATGGTCGACAAAAGGACACTTGA
Peptide sequence:
MYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFETEKKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPTVNWSNERCRQVNHWRTNNVFDWNGRQKDT
IRESfinder result
IRESfinder score
0.49696044
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page