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mmu_circXpot_1649
Basic information of circular RNA
PanCircBase ID:
mmu_circXpot_1649
mm39_Chr. Position ID:
chr10|121442625|121458896|-
Gene name:
Xpot
Transcript:
ENSMUST00000039810.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
14,13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,278,790,2403,2976,4755,6502,6766,8270,9894,10411,12372,16137
Genomic length:
16271
Exon/intron sizes in nt:
1,20,14,51,25,63,39,23,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr10:121442240-121442625|chr10:121458896-121462009
Splice length:
1649
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_350519
Human Ortholog IDs:
Mature spliced Sequence:
ATGATTGTGGATTCTGCTGTGGGATTAGAAGCCACGTCTGTTGTGATCGGAAAACTCCAGGAATAGCGGCCGAGATGGATGAACAGGCTCTTTTAGGGTTAAATCCAAATGCCGATTCAGACTTTAGACAGAGGGCCCTGGCTTATTTTGAGCAGTTAAAGATTTCCCCAGATGCCTGGCAGGTGTGTGCAGAGGCTCTGGCACAGAAGACATACAGTGATGACCACGTAAAGTTCTTCTGCTTCCAAGTACTAGAGCATCAAGTTAAATACAAGTACTCAGAACTAAGCACTGCTCAGCAGCAGCTCATCAGGGAGACACTGCTCTCATGGCTTCAGGCTCAGATGCAGAATCCGCAGCCAGAGAAGACCTTCATACGGAACAAAGCGGCCCAAGTGTTCGCCTTGCTTTTTGTTACAGAGTATCTCACTAAGTGGCCCAAGTTTTTTTTTGACATCCTCTCAGTTGTGGACCTAAACCCGAGGGGCGTGGACCTGTACCTGCGGATCCTCATGGCCATCGATTCAGAGCTGGTGGATCGGGACGTGGTTCACACGTCAGAGGCAAGTGGCTTGGAGAACACACTGATAAAAGACACCATGCGGGAGCAGTGCATTCCAAATCTGGTGGAATCGTGGTACCAGATTTTACACAACTACCAGTATACGAATTCAGAAGTGCTGTGCCAGTGCCTTGAAGTAGTTGGGGCCTACGTCTCCTGGATAGACTTATCCCTTATAGCCAATGATAGGTTTATAAATATGCTGCTAGGTCACATGTCCGTAGAGGTTCTACGGGAAGAAGCATGTGACTGCTTGTTCGAGATTGTAAATAAAGGGATGGACCCTGTGGATAAGATGAAACTCGTAGAGTCCCTGTGTCAAGTATTACAGACTGCTGGGTTTTTCAGCATTGACCAGGAAGAAGATTTGGACTTCGTGGCCAGATTTTCTAAGCTGGTAAATGGAATGGGACAGTCGTTAATAGTTAGCTGGACTAAATTAATTAAGAATGGGGCTGTCAAGAATGCGCAGGAGGCACTGGAAGCTATTGAGACAAAAGTGCCACTTATGTTACAGCTGCTAGTTCACGAGGACGATGACATTTCCTCCAACATCATTGGGTTTTGTTATGATTATCTCCATATCCTGAAACAGCTTCCTGTGCTCTCGGATCAGCAAAAAGCTAATGTAGAGGCAATCATGTTGGCCGTTATGAAAAAATTGACTTATGATGAAGAATATAACTTTGAAAATGAGGGTGAAGATGAAGCCATGTTTGTAGAATACAGAAAACAGCTGAAGTTACTGTTGGACAGACTTGCTCAGGTGTCCCCGGAGCTCGTGCTGGCTTCTGTTCGCAGGGTCTTCAGTGCCACGCTGCAGAACTGGCAGACCACGCGCTTCATGGAGGTTGAAGTAGCCGTGCGGTTGCTGTACATGCTGGCGGAAGCTCTCCCGGTGTCCCACGGCGCTCACTTCTCAGGTGACGTGTCAAAAGCGAGTGCTTTGCAGGACATGATGCGGACGCTGGTGACATCAGGAGTCAGCTCCTACCAGCACACGTCTGTGACCCTGGAGTTCTTTGAAACTGTTGTTCGCTATGAGAAGTTTTTCACAGTTGAACCTCAGCACATTCCGTGTGTACTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGTCTGTGACCCTGGAGTTC
60.04
CATCCATCTCGGCCGCTATT
60.04
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGTCTGTGACCCTGGAGTTC
60.04
GGCCGCTATTCCTGGAGTTT
60.11
157
PCR template sequence:
CTCCTACCAGCACACGTCTGTGACCCTGGAGTTCTTTGAAACTGTTGTTCGCTATGAGAAGTTTTTCACAGTTGAACCTCAGCACATTCCGTGTGTACTCATGATTGTGGATTCTGCTGTGGGATTAGAAGCCACGTCTGTTGTGATCGGAAAACTCCAGGAATAGCGGCCGAGATGGATGAACAGGCTCTTTTAGGGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-103-3p(1), mmu-miR-135a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-495-3p(1), mmu-miR-297a-5p(1), mmu-miR-107-3p(1), mmu-miR-680(1), mmu-miR-129-5p(1), mmu-miR-335-3p(1), mmu-miR-188-3p(1), mmu-miR-3065-5p(1), mmu-miR-339-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCGTGTGTACTCATGATTGTGGATT
siRNA sets
AATCATGAGTACACACGGA, AATCCACAATCATGAGTAC, CAATCATGAGTACACACGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCXPOT_1649_ORF_1
1.1679
0.245948408
0.999938676
1641
ORF sequence:
ATGGATGAACAGGCTCTTTTAGGGTTAAATCCAAATGCCGATTCAGACTTTAGACAGAGGGCCCTGGCTTATTTTGAGCAGTTAAAGATTTCCCCAGATGCCTGGCAGGTGTGTGCAGAGGCTCTGGCACAGAAGACATACAGTGATGACCACGTAAAGTTCTTCTGCTTCCAAGTACTAGAGCATCAAGTTAAATACAAGTACTCAGAACTAAGCACTGCTCAGCAGCAGCTCATCAGGGAGACACTGCTCTCATGGCTTCAGGCTCAGATGCAGAATCCGCAGCCAGAGAAGACCTTCATACGGAACAAAGCGGCCCAAGTGTTCGCCTTGCTTTTTGTTACAGAGTATCTCACTAAGTGGCCCAAGTTTTTTTTTGACATCCTCTCAGTTGTGGACCTAAACCCGAGGGGCGTGGACCTGTACCTGCGGATCCTCATGGCCATCGATTCAGAGCTGGTGGATCGGGACGTGGTTCACACGTCAGAGGCAAGTGGCTTGGAGAACACACTGATAAAAGACACCATGCGGGAGCAGTGCATTCCAAATCTGGTGGAATCGTGGTACCAGATTTTACACAACTACCAGTATACGAATTCAGAAGTGCTGTGCCAGTGCCTTGAAGTAGTTGGGGCCTACGTCTCCTGGATAGACTTATCCCTTATAGCCAATGATAGGTTTATAAATATGCTGCTAGGTCACATGTCCGTAGAGGTTCTACGGGAAGAAGCATGTGACTGCTTGTTCGAGATTGTAAATAAAGGGATGGACCCTGTGGATAAGATGAAACTCGTAGAGTCCCTGTGTCAAGTATTACAGACTGCTGGGTTTTTCAGCATTGACCAGGAAGAAGATTTGGACTTCGTGGCCAGATTTTCTAAGCTGGTAAATGGAATGGGACAGTCGTTAATAGTTAGCTGGACTAAATTAATTAAGAATGGGGCTGTCAAGAATGCGCAGGAGGCACTGGAAGCTATTGAGACAAAAGTGCCACTTATGTTACAGCTGCTAGTTCACGAGGACGATGACATTTCCTCCAACATCATTGGGTTTTGTTATGATTATCTCCATATCCTGAAACAGCTTCCTGTGCTCTCGGATCAGCAAAAAGCTAATGTAGAGGCAATCATGTTGGCCGTTATGAAAAAATTGACTTATGATGAAGAATATAACTTTGAAAATGAGGGTGAAGATGAAGCCATGTTTGTAGAATACAGAAAACAGCTGAAGTTACTGTTGGACAGACTTGCTCAGGTGTCCCCGGAGCTCGTGCTGGCTTCTGTTCGCAGGGTCTTCAGTGCCACGCTGCAGAACTGGCAGACCACGCGCTTCATGGAGGTTGAAGTAGCCGTGCGGTTGCTGTACATGCTGGCGGAAGCTCTCCCGGTGTCCCACGGCGCTCACTTCTCAGGTGACGTGTCAAAAGCGAGTGCTTTGCAGGACATGATGCGGACGCTGGTGACATCAGGAGTCAGCTCCTACCAGCACACGTCTGTGACCCTGGAGTTCTTTGAAACTGTTGTTCGCTATGAGAAGTTTTTCACAGTTGAACCTCAGCACATTCCGTGTGTACTCATGATTGTGGATTCTGCTGTGGGATTAGAAGCCACGTCTGTTGTGATCGGAAAACTCCAGGAATAG
Peptide sequence:
MDEQALLGLNPNADSDFRQRALAYFEQLKISPDAWQVCAEALAQKTYSDDHVKFFCFQVLEHQVKYKYSELSTAQQQLIRETLLSWLQAQMQNPQPEKTFIRNKAAQVFALLFVTEYLTKWPKFFFDILSVVDLNPRGVDLYLRILMAIDSELVDRDVVHTSEASGLENTLIKDTMREQCIPNLVESWYQILHNYQYTNSEVLCQCLEVVGAYVSWIDLSLIANDRFINMLLGHMSVEVLREEACDCLFEIVNKGMDPVDKMKLVESLCQVLQTAGFFSIDQEEDLDFVARFSKLVNGMGQSLIVSWTKLIKNGAVKNAQEALEAIETKVPLMLQLLVHEDDDISSNIIGFCYDYLHILKQLPVLSDQQKANVEAIMLAVMKKLTYDEEYNFENEGEDEAMFVEYRKQLKLLLDRLAQVSPELVLASVRRVFSATLQNWQTTRFMEVEVAVRLLYMLAEALPVSHGAHFSGDVSKASALQDMMRTLVTSGVSSYQHTSVTLEFFETVVRYEKFFTVEPQHIPCVLMIVDSAVGLEATSVVIGKLQE
IRESfinder result
IRESfinder score
0.534212758
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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