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mmu_circDlgap1_634
Basic information of circular RNA
PanCircBase ID:
mmu_circDlgap1_634
mm39_Chr. Position ID:
chr17|70900161|70969804|+
Gene name:
Dlgap1
Transcript:
ENSMUST00000133983.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
6,7,8
Exon/intron offsets:
0,64287,69402
Genomic length:
69643
Exon/intron sizes in nt:
21,51,78,241
Flanking exon/introns:
chr17:70823991-70900161|chr17:70969804-71068069
Splice length:
634
Other database IDs:
circBase: mmu_circ_0000809, CIRCpedia: MMU_CIRCpedia_27526, circAtlas: mmu-Dlgap1_0014
circAtlas: hsa-DLGAP1_0016, CIRCpedia: HSA_CIRCpedia_144798
Human Ortholog IDs:
Mature spliced Sequence:
GTTCCCCAGGATGAATGGTCAGGGTACACACCTCGCGGGAAAGACGACGAGATCCCGTGCCGGAGGATGCGCAGTGGTAGCTACATCAAAGCCATGGGGGATGAAGACAGTGGGGACTCGGACACGAGCCCCAAGCCGTCTCCCAAGGTGGCTGCAAGAAGAGAAAGCTATCTCAAGGCCACGCAGCCGTCCCTTACAGAGCTCACCACTCTCAAGATCTCCAATGAACACTCCCCCAAACTCCAGATCCGGAGTCACAGCTACCTGAGGGCCGTAAGTGAAGTCTCCATCAACAGAAGCCTGGACAGCCTGGACCCTGCAGGCTTGCTCACGTCACCAAAGTTCCGCTCCAGAAACGAGAGCTACATGCGCGCCATGAGCACCATAAGTCAGGTGAGCGAGATGGAGGTGAACGGCCAGTTCGAATCCGTGTGCGAGTCTGTGTTCAGCGAGCTGGAGTCGCAGGCGGTGGAAGCGCTGGACCTGCCCCTGCCTGGCTGCTTCCGCATGCGGAGCCACAGCTATGTGCGGGCCATCGAAAAGGGCTGCTCCCAGGACGACGAATGCGTGTCGCTGCGGTCGTCCTCCCCTCCACGCACAACCACCACCGTGAGGACCATCCAGAGCAGCACCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCCAGGACGACGAATGC
60.52
GGGATCTCGTCGTCTTTCCC
59.9
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCCCAGGACGACGAATG
60.52
GGGATCTCGTCGTCTTTCCC
59.9
143
PCR template sequence:
ATCGAAAAGGGCTGCTCCCAGGACGACGAATGCGTGTCGCTGCGGTCGTCCTCCCCTCCACGCACAACCACCACCGTGAGGACCATCCAGAGCAGCACCGGTTCCCCAGGATGAATGGTCAGGGTACACACCTCGCGGGAAAGACGACGAGATCCCGTGCCGGAGGATGCGCAGTGGTAGCTACATCAAAGCCATGGGGG
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-9-5p(1), mmu-miR-135a-5p(1), mmu-miR-122-5p(1), mmu-miR-324-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGAGCAGCACCGGTTCCCCAGGATG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDLGAP1_634_ORF_1
1.0382
0.501681619
0.948288405
582
ORF sequence:
ATGCGCAGTGGTAGCTACATCAAAGCCATGGGGGATGAAGACAGTGGGGACTCGGACACGAGCCCCAAGCCGTCTCCCAAGGTGGCTGCAAGAAGAGAAAGCTATCTCAAGGCCACGCAGCCGTCCCTTACAGAGCTCACCACTCTCAAGATCTCCAATGAACACTCCCCCAAACTCCAGATCCGGAGTCACAGCTACCTGAGGGCCGTAAGTGAAGTCTCCATCAACAGAAGCCTGGACAGCCTGGACCCTGCAGGCTTGCTCACGTCACCAAAGTTCCGCTCCAGAAACGAGAGCTACATGCGCGCCATGAGCACCATAAGTCAGGTGAGCGAGATGGAGGTGAACGGCCAGTTCGAATCCGTGTGCGAGTCTGTGTTCAGCGAGCTGGAGTCGCAGGCGGTGGAAGCGCTGGACCTGCCCCTGCCTGGCTGCTTCCGCATGCGGAGCCACAGCTATGTGCGGGCCATCGAAAAGGGCTGCTCCCAGGACGACGAATGCGTGTCGCTGCGGTCGTCCTCCCCTCCACGCACAACCACCACCGTGAGGACCATCCAGAGCAGCACCGGTTCCCCAGGATGA
Peptide sequence:
MRSGSYIKAMGDEDSGDSDTSPKPSPKVAARRESYLKATQPSLTELTTLKISNEHSPKLQIRSHSYLRAVSEVSINRSLDSLDPAGLLTSPKFRSRNESYMRAMSTISQVSEMEVNGQFESVCESVFSELESQAVEALDLPLPGCFRMRSHSYVRAIEKGCSQDDECVSLRSSSPPRTTTTVRTIQSSTGSPG
IRESfinder result
IRESfinder score
0.242066459
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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