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mmu_circGle1_804
Basic information of circular RNA
PanCircBase ID:
mmu_circGle1_804
mm39_Chr. Position ID:
chr2|29826021|29830348|+
Gene name:
Gle1
Transcript:
ENSMUST00000019859.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,2485,3125,3473,4072
Genomic length:
4327
Exon/intron sizes in nt:
2,28,11,11,49,61,255
Flanking exon/introns:
chr2:29825610-29826021|chr2:29830348-29832549
Splice length:
804
Other database IDs:
circBase: hsa_circ_0088809, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_62978
Human Ortholog IDs:
Mature spliced Sequence:
GATGTTTTGGAAGAATGCATGTCTCTTCCCAAACTGTCTTCTTACTCTGGATGGGTGGTAGATCACATCCTACCCAACACCTCAGGCCACACGCAAGAGAGTGCTCCTTCTTCTGATAATTCACCATCCTCTGGATCTGCATCTGGCTTGTACCAATCCTCACTACTAAAATCTCCTGTCAGAAGTAGCCCACAATCCCCGTCACCCTCATCACCAAATGGAACCCAGAGCACACATGAGTCCCCGTTCACAGAACCTATTGCACCTCAGTCCTCCCGGGCGATCAAAGTGGAAGGTTGCATCCGAATGTACGAATTGGCGCACAGAATGAGAGGAACAGAGGGCCTGAGGCAATGGCAGGAGGAGCAAGAGAGGAAGGTGCGAGCCCTCTCAGAGATGGCATCGGAGCAGCTAAAGAGGTTTGACGAGCTGAAGGAGCTGAAGCTGCATAAGGAGTTCCAGGACTTACAGGAAGTGATGGAGAAGAGTACCAGGGAGGCCCTGGGCCATCAGGAGAAGCTGAAAGAGGAGCACCGCCACAGAGCCAAGATTCTCAACCTAAAGCTTCGAGAGGCAGAGCAGCAGCGTGTGAAGCAGGCAGAGCAGGAGCAGCTTCGGAAGGAGGAAGGTCAGGTCCGTCTGCGCAGCCTGTACTCCCTGCAAGAGGAGGTCCTGCAGCTCAACCAGCAGTTGGATGCCTCCAGTCAGCACAAAGAGCTGCTGAGTGTGGACCTGGCTGCCTTCCAGACCCGGGGCAACCAGCTGTGTGGCCTCATCTCCAGCATCATCCGCACCACCTTGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAGCTGCTGAGTGTGGAC
59.97
GCCTGAGGTGTTGGGTAGGA
61.2
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAGCTGCTGAGTGTGGAC
59.97
CCTGAGGTGTTGGGTAGGATG
59.79
178
PCR template sequence:
TCAGCACAAAGAGCTGCTGAGTGTGGACCTGGCTGCCTTCCAGACCCGGGGCAACCAGCTGTGTGGCCTCATCTCCAGCATCATCCGCACCACCTTGGAGGATGTTTTGGAAGAATGCATGTCTCTTCCCAAACTGTCTTCTTACTCTGGATGGGTGGTAGATCACATCCTACCCAACACCTCAGGCCACACGCAAGAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-143-3p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CACCACCTTGGAGGATGTTTTGGAAG
siRNA sets
TTCCAAAACATCCTCCAAG, TCCAAAACATCCTCCAAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGLE1_804_ORF_1
1.0304
0.402922626
0.999942104
1590
ORF sequence:
ATGTCTCTTCCCAAACTGTCTTCTTACTCTGGATGGGTGGTAGATCACATCCTACCCAACACCTCAGGCCACACGCAAGAGAGTGCTCCTTCTTCTGATAATTCACCATCCTCTGGATCTGCATCTGGCTTGTACCAATCCTCACTACTAAAATCTCCTGTCAGAAGTAGCCCACAATCCCCGTCACCCTCATCACCAAATGGAACCCAGAGCACACATGAGTCCCCGTTCACAGAACCTATTGCACCTCAGTCCTCCCGGGCGATCAAAGTGGAAGGTTGCATCCGAATGTACGAATTGGCGCACAGAATGAGAGGAACAGAGGGCCTGAGGCAATGGCAGGAGGAGCAAGAGAGGAAGGTGCGAGCCCTCTCAGAGATGGCATCGGAGCAGCTAAAGAGGTTTGACGAGCTGAAGGAGCTGAAGCTGCATAAGGAGTTCCAGGACTTACAGGAAGTGATGGAGAAGAGTACCAGGGAGGCCCTGGGCCATCAGGAGAAGCTGAAAGAGGAGCACCGCCACAGAGCCAAGATTCTCAACCTAAAGCTTCGAGAGGCAGAGCAGCAGCGTGTGAAGCAGGCAGAGCAGGAGCAGCTTCGGAAGGAGGAAGGTCAGGTCCGTCTGCGCAGCCTGTACTCCCTGCAAGAGGAGGTCCTGCAGCTCAACCAGCAGTTGGATGCCTCCAGTCAGCACAAAGAGCTGCTGAGTGTGGACCTGGCTGCCTTCCAGACCCGGGGCAACCAGCTGTGTGGCCTCATCTCCAGCATCATCCGCACCACCTTGGAGGATGTTTTGGAAGAATGCATGTCTCTTCCCAAACTGTCTTCTTACTCTGGATGGGTGGTAGATCACATCCTACCCAACACCTCAGGCCACACGCAAGAGAGTGCTCCTTCTTCTGATAATTCACCATCCTCTGGATCTGCATCTGGCTTGTACCAATCCTCACTACTAAAATCTCCTGTCAGAAGTAGCCCACAATCCCCGTCACCCTCATCACCAAATGGAACCCAGAGCACACATGAGTCCCCGTTCACAGAACCTATTGCACCTCAGTCCTCCCGGGCGATCAAAGTGGAAGGTTGCATCCGAATGTACGAATTGGCGCACAGAATGAGAGGAACAGAGGGCCTGAGGCAATGGCAGGAGGAGCAAGAGAGGAAGGTGCGAGCCCTCTCAGAGATGGCATCGGAGCAGCTAAAGAGGTTTGACGAGCTGAAGGAGCTGAAGCTGCATAAGGAGTTCCAGGACTTACAGGAAGTGATGGAGAAGAGTACCAGGGAGGCCCTGGGCCATCAGGAGAAGCTGAAAGAGGAGCACCGCCACAGAGCCAAGATTCTCAACCTAAAGCTTCGAGAGGCAGAGCAGCAGCGTGTGAAGCAGGCAGAGCAGGAGCAGCTTCGGAAGGAGGAAGGTCAGGTCCGTCTGCGCAGCCTGTACTCCCTGCAAGAGGAGGTCCTGCAGCTCAACCAGCAGTTGGATGCCTCCAGTCAGCACAAAGAGCTGCTGAGTGTGGACCTGGCTGCCTTCCAGACCCGGGGCAACCAGCTGTGTGGCCTCATCTCCAGCATCATCCGCACCACCTTGGAG
Peptide sequence:
MSLPKLSSYSGWVVDHILPNTSGHTQESAPSSDNSPSSGSASGLYQSSLLKSPVRSSPQSPSPSSPNGTQSTHESPFTEPIAPQSSRAIKVEGCIRMYELAHRMRGTEGLRQWQEEQERKVRALSEMASEQLKRFDELKELKLHKEFQDLQEVMEKSTREALGHQEKLKEEHRHRAKILNLKLREAEQQRVKQAEQEQLRKEEGQVRLRSLYSLQEEVLQLNQQLDASSQHKELLSVDLAAFQTRGNQLCGLISSIIRTTLEDVLEECMSLPKLSSYSGWVVDHILPNTSGHTQESAPSSDNSPSSGSASGLYQSSLLKSPVRSSPQSPSPSSPNGTQSTHESPFTEPIAPQSSRAIKVEGCIRMYELAHRMRGTEGLRQWQEEQERKVRALSEMASEQLKRFDELKELKLHKEFQDLQEVMEKSTREALGHQEKLKEEHRHRAKILNLKLREAEQQRVKQAEQEQLRKEEGQVRLRSLYSLQEEVLQLNQQLDASSQHKELLSVDLAAFQTRGNQLCGLISSIIRTTLE
IRESfinder result
IRESfinder score
0.377009767
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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