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mmu_circDdx3y_816
Basic information of circular RNA
PanCircBase ID:
mmu_circDdx3y_816
mm39_Chr. Position ID:
chrY|1266594|1284382|-
Gene name:
Ddx3y
Transcript:
ENSMUST00000091190.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
9,8,7,6,5,4,3,2
Exon/intron offsets:
0,508,3110,12302,12828,13715,16306,17727
Genomic length:
17788
Exon/intron sizes in nt:
99,86,136,100,156,130,48,61
Flanking exon/introns:
chrY:1266519-1266594|chrY:1284382-1286478
Splice length:
816
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTTGTTGGTCTTGACCTGAAATCATCAGATAATCAGAATGGAGGAGGAAATACAGAGAGCAAAGGGCGCTATATACCTCCTCACTTAAGGAACAGAGAAACATCTAAAGGGGTCTGTGATAAGGACAGTTCAGGATGGAGCTGTAGTAAAGATAAAGATGCCTACAGCAGTTTTGGATCTCGTGATTCCAGAGGGAAGCCCAATTATTTCAGTGATCGTGGAAGTGGATCCAGGGGAAGGTTCGATGATCATGGTCGAAATGACTATGATGGTATTGGTGGTCGTGACCGAACTGGATTTGGCAAATTTGAACGGAGTGGTCATAGTCGTTGGAGTGACAGATCAGATGAAGATGACTGGTCAAAACCACTTCCACCAAGTGAACGCTTAGAGCAAGAACTTTTTTCTGGAGGAAACACAGGGATTAACTTTGAGAAATATGATGATATACCAGTAGAAGCAACTGGAAATAATTGTCCTCCTCACATTGAAAATTTCAGTGATATTGAGATGGGAGAAATTATCATGGGGAACATTGAACTTACTCGTTACACTCGTCCTACTCCAGTGCAAAAACATGCTATTCCAATTATTAAAGAAAAAAGGGACTTAATGGCTTGTGCTCAAACAGGGTCTGGAAAAACTGCTGCATTTCTACTACCCATTCTCAGTCAGATTTATACAGATGGTCCAGGAGAGGCTTTGAAGGCTATGAAGGAAAATGGAAGATATGGTCGCCGTAAACAATACCCAATCTCCTTGGTGTTAGCCCCAACAAGAGAATTGGCTGTGCAGATCTATGAGGAAGCCAGAAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTCGCCGTAAACAATACCC
58.99
ATAGCGCCCTTTGCTCTCTG
60.18
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGAAGATATGGTCGCCGT
58.95
ATAGCGCCCTTTGCTCTCTG
60.18
167
PCR template sequence:
GGAAAATGGAAGATATGGTCGCCGTAAACAATACCCAATCTCCTTGGTGTTAGCCCCAACAAGAGAATTGGCTGTGCAGATCTATGAGGAAGCCAGAAAATTTGTTGGTCTTGACCTGAAATCATCAGATAATCAGAATGGAGGAGGAAATACAGAGAGCAAAGGGCGCTATATACCTCCTCACTTAAGGAACAGAGAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-205-5p(1), mmu-miR-136-5p(1), mmu-miR-129-5p(1), mmu-miR-207(1), mmu-miR-202-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAAGCCAGAAAATTTGTTGGTCTTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDDX3Y_816_ORF_1
1.0359
0.081172923
0.993780082
1122
ORF sequence:
ATGGGAGAAATTATCATGGGGAACATTGAACTTACTCGTTACACTCGTCCTACTCCAGTGCAAAAACATGCTATTCCAATTATTAAAGAAAAAAGGGACTTAATGGCTTGTGCTCAAACAGGGTCTGGAAAAACTGCTGCATTTCTACTACCCATTCTCAGTCAGATTTATACAGATGGTCCAGGAGAGGCTTTGAAGGCTATGAAGGAAAATGGAAGATATGGTCGCCGTAAACAATACCCAATCTCCTTGGTGTTAGCCCCAACAAGAGAATTGGCTGTGCAGATCTATGAGGAAGCCAGAAAATTTGTTGGTCTTGACCTGAAATCATCAGATAATCAGAATGGAGGAGGAAATACAGAGAGCAAAGGGCGCTATATACCTCCTCACTTAAGGAACAGAGAAACATCTAAAGGGGTCTGTGATAAGGACAGTTCAGGATGGAGCTGTAGTAAAGATAAAGATGCCTACAGCAGTTTTGGATCTCGTGATTCCAGAGGGAAGCCCAATTATTTCAGTGATCGTGGAAGTGGATCCAGGGGAAGGTTCGATGATCATGGTCGAAATGACTATGATGGTATTGGTGGTCGTGACCGAACTGGATTTGGCAAATTTGAACGGAGTGGTCATAGTCGTTGGAGTGACAGATCAGATGAAGATGACTGGTCAAAACCACTTCCACCAAGTGAACGCTTAGAGCAAGAACTTTTTTCTGGAGGAAACACAGGGATTAACTTTGAGAAATATGATGATATACCAGTAGAAGCAACTGGAAATAATTGTCCTCCTCACATTGAAAATTTCAGTGATATTGAGATGGGAGAAATTATCATGGGGAACATTGAACTTACTCGTTACACTCGTCCTACTCCAGTGCAAAAACATGCTATTCCAATTATTAAAGAAAAAAGGGACTTAATGGCTTGTGCTCAAACAGGGTCTGGAAAAACTGCTGCATTTCTACTACCCATTCTCAGTCAGATTTATACAGATGGTCCAGGAGAGGCTTTGAAGGCTATGAAGGAAAATGGAAGATATGGTCGCCGTAAACAATACCCAATCTCCTTGGTGTTAGCCCCAACAAGAGAATTGGCTGTGCAGATCTATGAGGAAGCCAGAAAA
Peptide sequence:
MGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYTDGPGEALKAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFVGLDLKSSDNQNGGGNTESKGRYIPPHLRNRETSKGVCDKDSSGWSCSKDKDAYSSFGSRDSRGKPNYFSDRGSGSRGRFDDHGRNDYDGIGGRDRTGFGKFERSGHSRWSDRSDEDDWSKPLPPSERLEQELFSGGNTGINFEKYDDIPVEATGNNCPPHIENFSDIEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYTDGPGEALKAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARK
IRESfinder result
IRESfinder score
0.551139868
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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