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mmu_circDdhd2_718
Basic information of circular RNA
PanCircBase ID:
mmu_circDdhd2_718
mm39_Chr. Position ID:
chr8|26238564|26243200|-
Gene name:
Ddhd2
Transcript:
ENSMUST00000033975.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,1189,2165,3562,4410
Genomic length:
4636
Exon/intron sizes in nt:
90,121,90,191,226
Flanking exon/introns:
chr8:26236980-26238564|chr8:26243200-26244212
Splice length:
718
Other database IDs:
circAtlas: mmu-Ddhd2_0031
Human Ortholog IDs:
Mature spliced Sequence:
AGCGAAATGTCATCGGGGGAATCACACCAGGAGCAGCTGTCTCAGTCAGATCCGTCCCCATCCCCGAACTCTTGTAGTTCCTTCGAACTCATAGACATGGACGCCAGTAGTTCCTATGAACCCGTTTCTCCACATTGGTTTTATTGTAAGGTACTAGATTCCAAGGAGCTCTGGATTCCTTTCAACTCTGAGGATTCACAGCAGCTGGAAGACGCATATGGCTCTGGAAAAGATTGTAATGAGAGGATTGTTCCCACCGATGGGGGCAGATATGATGTTCATTTAGGGGAGCGGATGCGGTATGCTGTGTACTGGGACGAGCTGCCATCGGAAGTGAGACGGTGTACGTGGTTTTACAAGGGAGACAAAGACAATAAGTATGTCCCCTACTCGGAGAGCTTCAGCCAAGTCTTGGAGGATACGTACATGCTTGCAGTAACTCTGGATGAATGGAAAAAAAAAATAGAATCTCCAAACAGAGAAATTATTGTATTACACAACCCAAAGCTCATGGTGCATTACCAGCCAATTGCAGGGTCTGATGAATGGGGTTCAACATCCACTGAGCAAGGTCGGCCAAGATCAGTAAAAAGAGGCGTCGAGAACATCCCTGTTGATATTCACTGTGGGGAACCGTTACAAATAGATCACTTAGTGTTTGTAGTCCATGGGATTGGCCCAGCTTGCGATCTTCGTTTTCGAAGCATTGTTCAATGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTTGTAGTCCATGGGATTGGC
59.57
ACTACAAGAGTTCGGGGATGG
59.17
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGTTTGTAGTCCATGGGATTGG
59.56
CTACAAGAGTTCGGGGATGGG
59.86
141
PCR template sequence:
ATTCACTGTGGGGAACCGTTACAAATAGATCACTTAGTGTTTGTAGTCCATGGGATTGGCCCAGCTTGCGATCTTCGTTTTCGAAGCATTGTTCAATGTGAGCGAAATGTCATCGGGGGAATCACACCAGGAGCAGCTGTCTCAGTCAGATCCGTCCCCATCCCCGAACTCTTGTAGTTCCTTCGAACTCATAGACATGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(1), mmu-miR-184-3p(1), mmu-miR-128-3p(1), mmu-miR-434-3p(1), mmu-miR-362-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTGTTCAATGTGAGCGAAATGTCAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDDHD2_718_ORF_1
0.7624
0.139077165
0.917086626
789
ORF sequence:
ATGTCATCGGGGGAATCACACCAGGAGCAGCTGTCTCAGTCAGATCCGTCCCCATCCCCGAACTCTTGTAGTTCCTTCGAACTCATAGACATGGACGCCAGTAGTTCCTATGAACCCGTTTCTCCACATTGGTTTTATTGTAAGGTACTAGATTCCAAGGAGCTCTGGATTCCTTTCAACTCTGAGGATTCACAGCAGCTGGAAGACGCATATGGCTCTGGAAAAGATTGTAATGAGAGGATTGTTCCCACCGATGGGGGCAGATATGATGTTCATTTAGGGGAGCGGATGCGGTATGCTGTGTACTGGGACGAGCTGCCATCGGAAGTGAGACGGTGTACGTGGTTTTACAAGGGAGACAAAGACAATAAGTATGTCCCCTACTCGGAGAGCTTCAGCCAAGTCTTGGAGGATACGTACATGCTTGCAGTAACTCTGGATGAATGGAAAAAAAAAATAGAATCTCCAAACAGAGAAATTATTGTATTACACAACCCAAAGCTCATGGTGCATTACCAGCCAATTGCAGGGTCTGATGAATGGGGTTCAACATCCACTGAGCAAGGTCGGCCAAGATCAGTAAAAAGAGGCGTCGAGAACATCCCTGTTGATATTCACTGTGGGGAACCGTTACAAATAGATCACTTAGTGTTTGTAGTCCATGGGATTGGCCCAGCTTGCGATCTTCGTTTTCGAAGCATTGTTCAATGTGAGCGAAATGTCATCGGGGGAATCACACCAGGAGCAGCTGTCTCAGTCAGATCCGTCCCCATCCCCGAACTCTTGTAG
Peptide sequence:
MSSGESHQEQLSQSDPSPSPNSCSSFELIDMDASSSYEPVSPHWFYCKVLDSKELWIPFNSEDSQQLEDAYGSGKDCNERIVPTDGGRYDVHLGERMRYAVYWDELPSEVRRCTWFYKGDKDNKYVPYSESFSQVLEDTYMLAVTLDEWKKKIESPNREIIVLHNPKLMVHYQPIAGSDEWGSTSTEQGRPRSVKRGVENIPVDIHCGEPLQIDHLVFVVHGIGPACDLRFRSIVQCERNVIGGITPGAAVSVRSVPIPELL
IRESfinder result
IRESfinder score
0.542992065
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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