top of page
mmu_circDlgap1_1007
Basic information of circular RNA
PanCircBase ID:
mmu_circDlgap1_1007
mm39_Chr. Position ID:
chr17|71025190|71116274|+
Gene name:
Dlgap1
Transcript:
ENSMUST00000146730.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
9,10,11,12,13
Exon/intron offsets:
0,42879,47802,68592,90992
Genomic length:
91084
Exon/intron sizes in nt:
30,371,92,422,92
Flanking exon/introns:
chr17:70969804-71025190|chr17:71116274-71122188
Splice length:
1007
Other database IDs:
circAtlas: mmu-Dlgap1_0065
Human Ortholog IDs:
Mature spliced Sequence:
GTGTCATAAAACTGAGTTCTGCCGTTGAAGTGTCATCTTGCATTACAACATATAAGAAGACACCACCTCCAGTCCCACCCAGAACTACCACGAAACCTTTCATTTCTATCACAGCCCAGAGTAGCACAGAGTCTGCGCAGGATGCCTACATGGACGGGCAAGGCCAGCGCGGAGACATGATCAGCCAGTCTGGCCTCAGCAACTCCACCGAAAGTCTGGACAGTATGAAGGCTCTCACGGCTGCCATCGAGGCTGCAAACGCCCAGATTCACGGCCCAGCAAGTCAACATATGGGCAGCAATGCTGCTGCTGTCACCACCACCACCACCATAGCCACTGTCACCACCGAGGATAGGAAGAAAGACTTTAAGAAAAACCGATGTCTGTCTATTGGGATACAGGTGGACGATGCCGAAGAGCCGGAGAAAATGGCAGAGAGTAAGACGTCCAATAAGTTCCAGTCCGTGGGAGTGCAAGTAGAAGAAGAGAAGTGCTTCCGCAGGTTCACTCGGTCCAACAGTGTGACAACTGCAGTACAGGCCGACCTGGACTTCCATGATAATCTGGAAAATTCTCTGGAGTCTATAGAGGACAATTCGTGTCCTGGCCCCATGGCCAGACAGTTCTCGCGGGACGCCAGCACCTCTACCGTCAGTATCCAGGGTTCAGGAAACCACTATCATGCCTGTGCAGCCGATGACGACTTTGACACGGATTTTGACCCCTCTATCCTGCCTCCTCCGGACCCCTGGATTGACTCTATCACAGAAGACCCTCTGGAGGCCGTTCAAAGGTCCGTGTGCCACCGGGACGGCCACTGGTTCCTGAAGCTTCTCCAGGCAGAGCGGGACCGCATGGAAGGGTGGTGCAAGCTAATGGAGAGAGAAGAGAGGGAGAACAACCTCCCAGAAGACATTCTAGGGAAAATCCGAACCGCGGTGGGCAGTGCCCAACTTCTCATGGCGCAGAAATTCTACCAGTTCAGAGAACTGTGTGAAGAGAACCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAGGGAAAATCCGAACCGCG
60.46
TGGTAGTTCTGGGTGGGACT
59.81
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGTGCCCAACTTCTCATG
59.48
TGGTAGTTCTGGGTGGGACT
59.81
155
PCR template sequence:
AGAAGACATTCTAGGGAAAATCCGAACCGCGGTGGGCAGTGCCCAACTTCTCATGGCGCAGAAATTCTACCAGTTCAGAGAACTGTGTGAAGAGAACCTGGTGTCATAAAACTGAGTTCTGCCGTTGAAGTGTCATCTTGCATTACAACATATAAGAAGACACCACCTCCAGTCCCACCCAGAACTACCACGAAACCTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-103-3p(1), mmu-miR-205-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-146a-5p(1), mmu-miR-136-5p(1), mmu-miR-125a-5p(1), mmu-miR-183-5p(1), mmu-miR-107-3p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAAGAGAACCTGGTGTCATAAAACT
siRNA sets
TTTATGACACCAGGTTCTC, TTTTATGACACCAGGTTCT, TTATGACACCAGGTTCTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDLGAP1_1007_ORF_1
1.2208
0.413471367
0.992804941
867
ORF sequence:
ATGGACGGGCAAGGCCAGCGCGGAGACATGATCAGCCAGTCTGGCCTCAGCAACTCCACCGAAAGTCTGGACAGTATGAAGGCTCTCACGGCTGCCATCGAGGCTGCAAACGCCCAGATTCACGGCCCAGCAAGTCAACATATGGGCAGCAATGCTGCTGCTGTCACCACCACCACCACCATAGCCACTGTCACCACCGAGGATAGGAAGAAAGACTTTAAGAAAAACCGATGTCTGTCTATTGGGATACAGGTGGACGATGCCGAAGAGCCGGAGAAAATGGCAGAGAGTAAGACGTCCAATAAGTTCCAGTCCGTGGGAGTGCAAGTAGAAGAAGAGAAGTGCTTCCGCAGGTTCACTCGGTCCAACAGTGTGACAACTGCAGTACAGGCCGACCTGGACTTCCATGATAATCTGGAAAATTCTCTGGAGTCTATAGAGGACAATTCGTGTCCTGGCCCCATGGCCAGACAGTTCTCGCGGGACGCCAGCACCTCTACCGTCAGTATCCAGGGTTCAGGAAACCACTATCATGCCTGTGCAGCCGATGACGACTTTGACACGGATTTTGACCCCTCTATCCTGCCTCCTCCGGACCCCTGGATTGACTCTATCACAGAAGACCCTCTGGAGGCCGTTCAAAGGTCCGTGTGCCACCGGGACGGCCACTGGTTCCTGAAGCTTCTCCAGGCAGAGCGGGACCGCATGGAAGGGTGGTGCAAGCTAATGGAGAGAGAAGAGAGGGAGAACAACCTCCCAGAAGACATTCTAGGGAAAATCCGAACCGCGGTGGGCAGTGCCCAACTTCTCATGGCGCAGAAATTCTACCAGTTCAGAGAACTGTGTGAAGAGAACCTGGTGTCATAA
Peptide sequence:
MDGQGQRGDMISQSGLSNSTESLDSMKALTAAIEAANAQIHGPASQHMGSNAAAVTTTTTIATVTTEDRKKDFKKNRCLSIGIQVDDAEEPEKMAESKTSNKFQSVGVQVEEEKCFRRFTRSNSVTTAVQADLDFHDNLENSLESIEDNSCPGPMARQFSRDASTSTVSIQGSGNHYHACAADDDFDTDFDPSILPPPDPWIDSITEDPLEAVQRSVCHRDGHWFLKLLQAERDRMEGWCKLMEREERENNLPEDILGKIRTAVGSAQLLMAQKFYQFRELCEENLVS
IRESfinder result
IRESfinder score
0.378714961
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page