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mmu_circGolga1_1282
Basic information of circular RNA
PanCircBase ID:
mmu_circGolga1_1282
mm39_Chr. Position ID:
chr2|38908350|38925332|-
Gene name:
Golga1
Transcript:
ENSMUST00000184996.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
23,22,21,20,19,18,17,16,15,14,13
Exon/intron offsets:
0,651,1144,1732,4362,4801,5034,5870,14818,15722,16886
Genomic length:
16982
Exon/intron sizes in nt:
151,87,171,60,144,134,103,90,96,150,96
Flanking exon/introns:
chr2:38907926-38908350|chr2:38925332-38929051
Splice length:
1282
Other database IDs:
circBase: mmu_circ_0009951, circAtlas: mmu-Golga1_0041
Human Ortholog IDs:
Mature spliced Sequence:
GTGAAGGACCTAGAGCGGAGTCTACAGGCTGCTGAAGAACAGCTAAGCCAGAGTAGAAATGTTGTGGCTGACCAGGAAGCCCAGATCCAGAAGCTTATCACTACAAACCAGGAGAACAGCCTTTCCCAGCAGCAGGTTCTTGCCCTGGAACAGCATTGCAGGGAGCGCATCCATGCACTGGAGGCCCAAATTGAAGCTCTGGAACAAACACGGGTAGCTGACCAGATAGCCTCAGAGCAGGGAATGCTACAACTGCAGCAGGAAAATGTGGCCCTTAAAGAAAGCAGAAATGAATGTGAACATTCCTTACAACATCACCAATTGGAACTAAAGAAACTAAAGGATGAATGGAGCCAAAGAGAAATTGTGAGTGTAGCAATGGCTCAAGCCCTGGAGGAGGTGCGGAAACAGAGAGAAGAGTTCCAGCAACAGGCCACTGAGTTGACAGCCATCATAGAAGAGAAAAATCAGAGCCTGTGTGAAAAGGATGAGGCACTTCTCCAGAAGGAGCAGGAACTTCGACAGCTGGAAAAAGGTCACAGTTCTGCCCTGCTGCAGATGCACAAACTGCAGAGGGAACTAGAGGCCTTGAAGACTTGCAAGGCTCAGGAGGCAATGCCAGCCACAACAGGAGAGGACTGCCTGCCACTGCAGGGCCAGGAGCCACTTGTCATTTCAAAAGCCATGCAGAATTCTGAGTATGAGCTTCCAGCTGCAGAAGGAACTCCAAACGGTGAGGTTGGAGCCAGTGATCTAAAGCAGCTACAGAAAGAAAAGCAGGACTTAGAACAGCAACTTATCGAGAAAAATAAGATTATGAAGCAAATGCAGCAGAGGATGCTGGAACTTAAGAAGACTCTACAGAAAGAGTTGAAAATCAGACCTGACAGTGAGCTTTTTGAGGTCCGGGAGAAGACAGGCCCTGAGATACCAAATATGGCCCCTTCTGTCACTAATAATACTGACCTGACTGATGCCCGAGAGATCAACTTTGAATACCTTAAACATGTTGTTTTAAAATTCATGTCCTGTCGAGAATCTGAGGCTTTTCATCTCATAAAAGCAGTGTCAGTGCTGCTGAATTTCTCACAAGAAGAGGAGAATATGCTCAAAGAGACTCTGGAATATAAGATGTCTTGGTTTGGATCCAAACCAACTCCCAAGGGCAGCATCCGGCCATCTATCTCCAACCCTCGGATACCATGGTCCTAGAGCCATCCAAGGATAGAGCTACATGGGCTGACACTCTTCCTGTGAAAAGAATACTGACACACCAGACTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAACCCTCGGATACCATGG
59.89
CTTCCTGGTCAGCCACAACA
60.18
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCCAACCCTCGGATACCA
59.66
CTTCCTGGTCAGCCACAACA
60.18
178
PCR template sequence:
ATCTCCAACCCTCGGATACCATGGTCCTAGAGCCATCCAAGGATAGAGCTACATGGGCTGACACTCTTCCTGTGAAAAGAATACTGACACACCAGACTGGGTGAAGGACCTAGAGCGGAGTCTACAGGCTGCTGAAGAACAGCTAAGCCAGAGTAGAAATGTTGTGGCTGACCAGGAAGCCCAGATCCAGAAGCTTATCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
23
Interacting miRNAs (#binding sites)
mmu-miR-370-3p(2), mmu-miR-1904(2), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-103-3p(1), mmu-miR-221-3p(1), mmu-miR-135a-5p(1), mmu-miR-31-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-152-3p(1), mmu-miR-143-3p(1), mmu-miR-339-5p(1), mmu-miR-181b-5p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-431-5p(1), mmu-miR-362-5p(1), mmu-miR-107-3p(1), mmu-miR-27a-5p(1), mmu-miR-207(1), mmu-miR-296-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CACACCAGACTGGGTGAAGGACCTAG
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
0.438784087
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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