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mmu_circDdx3y_936
Basic information of circular RNA
PanCircBase ID:
mmu_circDdx3y_936
mm39_Chr. Position ID:
chrY|1264840|1267188|-
Gene name:
Ddx3y
Transcript:
ENSMUST00000091190.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
14,13,12,11,10,9,8
Exon/intron offsets:
0,187,734,988,1518,1754,2262
Genomic length:
2348
Exon/intron sizes in nt:
118,182,145,145,161,99,86
Flanking exon/introns:
chrY:1263949-1264840|chrY:1267188-1269704
Splice length:
936
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGTCTGGAAAAACTGCTGCATTTCTACTACCCATTCTCAGTCAGATTTATACAGATGGTCCAGGAGAGGCTTTGAAGGCTATGAAGGAAAATGGAAGATATGGTCGCCGTAAACAATACCCAATCTCCTTGGTGTTAGCCCCAACAAGAGAATTGGCTGTGCAGATCTATGAGGAAGCCAGAAAATTTTCATACCGATCTAGAGTCCGTCCTTGTGTAGTGTATGGTGGTGCTGATACTGTTCAGCAGATTCGGGACTTAGAACGTGGATGCCACTTGTTAGTTGCCACACCAGGACGTCTAGTGGACATGATGGAAAGAGGAAAGATTGGATTAGATTTCTGCAAATACTTAGTATTGGATGAAGCTGATAGGATGCTGGATATGGGATTTGAACCTCAAATACGTCGTATAGTTGAGCAGGACACAATGCCACCAAAGGGGGTTCGTCACACTATGATGTTTAGTGCTACTTTTCCTAAGGAGATACAGATGCTTGCTCGTGACTTTTTAGATGAATATATCTTTCTGGCTGTAGGCAGAGTAGGATCTACTTCTGAGAACATCACACAGAAAGTAGTATGGGTTGAAGAACTAGACAAACGGTCATTTTTACTTGATCTCTTAAATGCAACAGGGAAGGATTCATTGACTTTAGTATTTGTGGAGACTAAAAAGGGTGCAGATTCGCTGGAGAACTTCTTATTTCAAGAAAGATATGCGTGTACTAGTATTCATGGAGACAGATCACAGAAAGATCGAGAGGAGGCCCTTCACCAGTTTCGCTCAGGGCGAAAGCCAATTTTAGTGGCTACAGCTGTGGCAGCAAGAGGTCTAGACATTTCAAATGTGAAACATGTTATCAATTTTGATTTGCCAAGCGATATTGAAGAATATGTGCATCGAATTGGCCGCACAGGACGTGTAGGAAACCTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAATTTTGATTTGCCAAGCGA
58.01
AAGCCTCTCCTGGACCATCT
59.96
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAATTTTGATTTGCCAAGCGA
58.01
AGCCTTCAAAGCCTCTCCTG
59.67
155
PCR template sequence:
GACATTTCAAATGTGAAACATGTTATCAATTTTGATTTGCCAAGCGATATTGAAGAATATGTGCATCGAATTGGCCGCACAGGACGTGTAGGAAACCTTGGGTCTGGAAAAACTGCTGCATTTCTACTACCCATTCTCAGTCAGATTTATACAGATGGTCCAGGAGAGGCTTTGAAGGCTATGAAGGAAAATGGAAGATA
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-205-5p(1), mmu-miR-203-3p(1), mmu-miR-125b-5p(1), mmu-miR-381-3p(1), mmu-miR-351-5p(1), mmu-miR-182-5p(1), mmu-miR-224-5p(1), mmu-miR-5099(1), mmu-miR-670-5p(1), mmu-miR-338-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTAGGAAACCTTGGGTCTGGAAAAAC
siRNA sets
GTTTTTCCAGACCCAAGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDDX3Y_936_ORF_1
0.9577
0.07869044
0.99994114
1791
ORF sequence:
ATGAAGGAAAATGGAAGATATGGTCGCCGTAAACAATACCCAATCTCCTTGGTGTTAGCCCCAACAAGAGAATTGGCTGTGCAGATCTATGAGGAAGCCAGAAAATTTTCATACCGATCTAGAGTCCGTCCTTGTGTAGTGTATGGTGGTGCTGATACTGTTCAGCAGATTCGGGACTTAGAACGTGGATGCCACTTGTTAGTTGCCACACCAGGACGTCTAGTGGACATGATGGAAAGAGGAAAGATTGGATTAGATTTCTGCAAATACTTAGTATTGGATGAAGCTGATAGGATGCTGGATATGGGATTTGAACCTCAAATACGTCGTATAGTTGAGCAGGACACAATGCCACCAAAGGGGGTTCGTCACACTATGATGTTTAGTGCTACTTTTCCTAAGGAGATACAGATGCTTGCTCGTGACTTTTTAGATGAATATATCTTTCTGGCTGTAGGCAGAGTAGGATCTACTTCTGAGAACATCACACAGAAAGTAGTATGGGTTGAAGAACTAGACAAACGGTCATTTTTACTTGATCTCTTAAATGCAACAGGGAAGGATTCATTGACTTTAGTATTTGTGGAGACTAAAAAGGGTGCAGATTCGCTGGAGAACTTCTTATTTCAAGAAAGATATGCGTGTACTAGTATTCATGGAGACAGATCACAGAAAGATCGAGAGGAGGCCCTTCACCAGTTTCGCTCAGGGCGAAAGCCAATTTTAGTGGCTACAGCTGTGGCAGCAAGAGGTCTAGACATTTCAAATGTGAAACATGTTATCAATTTTGATTTGCCAAGCGATATTGAAGAATATGTGCATCGAATTGGCCGCACAGGACGTGTAGGAAACCTTGGGTCTGGAAAAACTGCTGCATTTCTACTACCCATTCTCAGTCAGATTTATACAGATGGTCCAGGAGAGGCTTTGAAGGCTATGAAGGAAAATGGAAGATATGGTCGCCGTAAACAATACCCAATCTCCTTGGTGTTAGCCCCAACAAGAGAATTGGCTGTGCAGATCTATGAGGAAGCCAGAAAATTTTCATACCGATCTAGAGTCCGTCCTTGTGTAGTGTATGGTGGTGCTGATACTGTTCAGCAGATTCGGGACTTAGAACGTGGATGCCACTTGTTAGTTGCCACACCAGGACGTCTAGTGGACATGATGGAAAGAGGAAAGATTGGATTAGATTTCTGCAAATACTTAGTATTGGATGAAGCTGATAGGATGCTGGATATGGGATTTGAACCTCAAATACGTCGTATAGTTGAGCAGGACACAATGCCACCAAAGGGGGTTCGTCACACTATGATGTTTAGTGCTACTTTTCCTAAGGAGATACAGATGCTTGCTCGTGACTTTTTAGATGAATATATCTTTCTGGCTGTAGGCAGAGTAGGATCTACTTCTGAGAACATCACACAGAAAGTAGTATGGGTTGAAGAACTAGACAAACGGTCATTTTTACTTGATCTCTTAAATGCAACAGGGAAGGATTCATTGACTTTAGTATTTGTGGAGACTAAAAAGGGTGCAGATTCGCTGGAGAACTTCTTATTTCAAGAAAGATATGCGTGTACTAGTATTCATGGAGACAGATCACAGAAAGATCGAGAGGAGGCCCTTCACCAGTTTCGCTCAGGGCGAAAGCCAATTTTAGTGGCTACAGCTGTGGCAGCAAGAGGTCTAGACATTTCAAATGTGAAACATGTTATCAATTTTGATTTGCCAAGCGATATTGAAGAATATGTGCATCGAATTGGCCGCACAGGACGTGTAGGAAACCTT
Peptide sequence:
MKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADTVQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQKVVWVEELDKRSFLLDLLNATGKDSLTLVFVETKKGADSLENFLFQERYACTSIHGDRSQKDREEALHQFRSGRKPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGSGKTAAFLLPILSQIYTDGPGEALKAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADTVQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQKVVWVEELDKRSFLLDLLNATGKDSLTLVFVETKKGADSLENFLFQERYACTSIHGDRSQKDREEALHQFRSGRKPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNL
IRESfinder result
IRESfinder score
0.625477617
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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