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mmu_circDennd1a_495
Basic information of circular RNA
PanCircBase ID:
mmu_circDennd1a_495
mm39_Chr. Position ID:
chr2|37734788|37748484|-
Gene name:
Dennd1a
Transcript:
ENSMUST00000102787.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
19,18,17,16,15,14
Exon/intron offsets:
0,7619,9216,11339,13241,13591
Genomic length:
13696
Exon/intron sizes in nt:
1,32,57,72,41,88,105
Flanking exon/introns:
chr2:37707016-37734788|chr2:37748484-37826630
Splice length:
495
Other database IDs:
CIRCpedia: MMU_CIRCpedia_18674, circAtlas: mmu-Dennd1a_0014
circBase: hsa_circ_0088435, circAtlas: hsa-DENND1A_0016, CIRCpedia: HSA_CIRCpedia_62664
Human Ortholog IDs:
Mature spliced Sequence:
GAAGAACCCATCACTTTCAGTGAGGAAGCCTTTGTATCCCACTACCGCTCTGGAGCCATGAAACAGTTCCTACAGAATGCCACACAGTTGCAGCTCTTCAAGCAGTTTATCGATGGCCGACTAGACCTTCTCAATTCCGGTGAAGGTTTCAGCGATGTCTTTGAGGAGGAAATCAACATGGGAGAGTATGCCGGCAGTGATAAACTGTACCATCAGTGGCTGTCCACAGTCAGGAAAGGAAGTGGTGCGATTCTGAATACTGTAAAAACAAAAGCTAACCCAGCCATGAAGACTGTCTACAAGTTTGCAAAAGATCATGCAAAAATGGGAATAAAGGAGGTGAAAAACCGCTTGAAGCAAAAGGACATCACGGAGAACGGCTGTGTGTCCTCTGCAGAAGATCCACTGCCAAAGACCATGCCATCCCCACAGGCAGAGACCCAGGACCCCAGACTTCGAGAAGACCGGAGACCAATCACAGTCCACTTTGGGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGACCCCAGACTTCGAGAA
59.89
GAAGAGCTGCAACTGTGTGG
59.41
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGACTTCGAGAAGACCGG
59.83
GAAGAGCTGCAACTGTGTGG
59.41
146
PCR template sequence:
AGAAGATCCACTGCCAAAGACCATGCCATCCCCACAGGCAGAGACCCAGGACCCCAGACTTCGAGAAGACCGGAGACCAATCACAGTCCACTTTGGGCAGGAAGAACCCATCACTTTCAGTGAGGAAGCCTTTGTATCCCACTACCGCTCTGGAGCCATGAAACAGTTCCTACAGAATGCCACACAGTTGCAGCTCTTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(1), mmu-miR-381-3p(1), mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCACTTTGGGCAGGAAGAACCCATCA
siRNA sets
TTCTTCCTGCCCAAAGTGG,GTTCTTCCTGCCCAAAGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDENND1A_495_ORF_1
1.1463
0.360695636
0.993775503
933
ORF sequence:
ATGAAACAGTTCCTACAGAATGCCACACAGTTGCAGCTCTTCAAGCAGTTTATCGATGGCCGACTAGACCTTCTCAATTCCGGTGAAGGTTTCAGCGATGTCTTTGAGGAGGAAATCAACATGGGAGAGTATGCCGGCAGTGATAAACTGTACCATCAGTGGCTGTCCACAGTCAGGAAAGGAAGTGGTGCGATTCTGAATACTGTAAAAACAAAAGCTAACCCAGCCATGAAGACTGTCTACAAGTTTGCAAAAGATCATGCAAAAATGGGAATAAAGGAGGTGAAAAACCGCTTGAAGCAAAAGGACATCACGGAGAACGGCTGTGTGTCCTCTGCAGAAGATCCACTGCCAAAGACCATGCCATCCCCACAGGCAGAGACCCAGGACCCCAGACTTCGAGAAGACCGGAGACCAATCACAGTCCACTTTGGGCAGGAAGAACCCATCACTTTCAGTGAGGAAGCCTTTGTATCCCACTACCGCTCTGGAGCCATGAAACAGTTCCTACAGAATGCCACACAGTTGCAGCTCTTCAAGCAGTTTATCGATGGCCGACTAGACCTTCTCAATTCCGGTGAAGGTTTCAGCGATGTCTTTGAGGAGGAAATCAACATGGGAGAGTATGCCGGCAGTGATAAACTGTACCATCAGTGGCTGTCCACAGTCAGGAAAGGAAGTGGTGCGATTCTGAATACTGTAAAAACAAAAGCTAACCCAGCCATGAAGACTGTCTACAAGTTTGCAAAAGATCATGCAAAAATGGGAATAAAGGAGGTGAAAAACCGCTTGAAGCAAAAGGACATCACGGAGAACGGCTGTGTGTCCTCTGCAGAAGATCCACTGCCAAAGACCATGCCATCCCCACAGGCAGAGACCCAGGACCCCAGACTTCGAGAAGACCGGAGACCAATCACAGTCCACTTTGGGCAG
Peptide sequence:
MKQFLQNATQLQLFKQFIDGRLDLLNSGEGFSDVFEEEINMGEYAGSDKLYHQWLSTVRKGSGAILNTVKTKANPAMKTVYKFAKDHAKMGIKEVKNRLKQKDITENGCVSSAEDPLPKTMPSPQAETQDPRLREDRRPITVHFGQEEPITFSEEAFVSHYRSGAMKQFLQNATQLQLFKQFIDGRLDLLNSGEGFSDVFEEEINMGEYAGSDKLYHQWLSTVRKGSGAILNTVKTKANPAMKTVYKFAKDHAKMGIKEVKNRLKQKDITENGCVSSAEDPLPKTMPSPQAETQDPRLREDRRPITVHFGQ
IRESfinder result
IRESfinder score
0.269825065
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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