top of page
mmu_circXpot_1157
Basic information of circular RNA
PanCircBase ID:
mmu_circXpot_1157
mm39_Chr. Position ID:
chr10|121447380|121458896|-
Gene name:
Xpot
Transcript:
ENSMUST00000039810.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
9,8,7,6,5,4,3,2
Exon/intron offsets:
0,1747,2011,3515,5139,5656,7617,11382
Genomic length:
11516
Exon/intron sizes in nt:
237,169,174,233,70,57,83,134
Flanking exon/introns:
chr10:121445640-121447380|chr10:121458896-121462009
Splice length:
1157
Other database IDs:
circBase: hsa_circ_0098970, circAtlas: hsa-XPOT_0006, CIRCpedia: HSA_CIRCpedia_71836
Human Ortholog IDs:
Mature spliced Sequence:
ATGATTGTGGATTCTGCTGTGGGATTAGAAGCCACGTCTGTTGTGATCGGAAAACTCCAGGAATAGCGGCCGAGATGGATGAACAGGCTCTTTTAGGGTTAAATCCAAATGCCGATTCAGACTTTAGACAGAGGGCCCTGGCTTATTTTGAGCAGTTAAAGATTTCCCCAGATGCCTGGCAGGTGTGTGCAGAGGCTCTGGCACAGAAGACATACAGTGATGACCACGTAAAGTTCTTCTGCTTCCAAGTACTAGAGCATCAAGTTAAATACAAGTACTCAGAACTAAGCACTGCTCAGCAGCAGCTCATCAGGGAGACACTGCTCTCATGGCTTCAGGCTCAGATGCAGAATCCGCAGCCAGAGAAGACCTTCATACGGAACAAAGCGGCCCAAGTGTTCGCCTTGCTTTTTGTTACAGAGTATCTCACTAAGTGGCCCAAGTTTTTTTTTGACATCCTCTCAGTTGTGGACCTAAACCCGAGGGGCGTGGACCTGTACCTGCGGATCCTCATGGCCATCGATTCAGAGCTGGTGGATCGGGACGTGGTTCACACGTCAGAGGCAAGTGGCTTGGAGAACACACTGATAAAAGACACCATGCGGGAGCAGTGCATTCCAAATCTGGTGGAATCGTGGTACCAGATTTTACACAACTACCAGTATACGAATTCAGAAGTGCTGTGCCAGTGCCTTGAAGTAGTTGGGGCCTACGTCTCCTGGATAGACTTATCCCTTATAGCCAATGATAGGTTTATAAATATGCTGCTAGGTCACATGTCCGTAGAGGTTCTACGGGAAGAAGCATGTGACTGCTTGTTCGAGATTGTAAATAAAGGGATGGACCCTGTGGATAAGATGAAACTCGTAGAGTCCCTGTGTCAAGTATTACAGACTGCTGGGTTTTTCAGCATTGACCAGGAAGAAGATTTGGACTTCGTGGCCAGATTTTCTAAGCTGGTAAATGGAATGGGACAGTCGTTAATAGTTAGCTGGACTAAATTAATTAAGAATGGGGCTGTCAAGAATGCGCAGGAGGCACTGGAAGCTATTGAGACAAAAGTGCCACTTATGTTACAGCTGCTAGTTCACGAGGACGATGACATTTCCTCCAACATCATTGGGTTTTGTTATGATTATCTCCATATCCTGAAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGCTGCTAGTTCACGAGG
59.76
CATCCATCTCGGCCGCTATT
60.04
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGCTGCTAGTTCACGAGG
59.76
GGCCGCTATTCCTGGAGTTT
60.11
153
PCR template sequence:
AAAAGTGCCACTTATGTTACAGCTGCTAGTTCACGAGGACGATGACATTTCCTCCAACATCATTGGGTTTTGTTATGATTATCTCCATATCCTGAAACAGATGATTGTGGATTCTGCTGTGGGATTAGAAGCCACGTCTGTTGTGATCGGAAAACTCCAGGAATAGCGGCCGAGATGGATGAACAGGCTCTTTTAGGGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-297a-5p(1), mmu-miR-107-3p(1), mmu-miR-680(1), mmu-miR-188-3p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TATCCTGAAACAGATGATTGTGGATT
siRNA sets
AATCATCTGTTTCAGGATA, AATCCACAATCATCTGTTT, ATCCACAATCATCTGTTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCXPOT_1157_ORF_1
1.0909
0.210321261
0.99722126
1149
ORF sequence:
ATGGATGAACAGGCTCTTTTAGGGTTAAATCCAAATGCCGATTCAGACTTTAGACAGAGGGCCCTGGCTTATTTTGAGCAGTTAAAGATTTCCCCAGATGCCTGGCAGGTGTGTGCAGAGGCTCTGGCACAGAAGACATACAGTGATGACCACGTAAAGTTCTTCTGCTTCCAAGTACTAGAGCATCAAGTTAAATACAAGTACTCAGAACTAAGCACTGCTCAGCAGCAGCTCATCAGGGAGACACTGCTCTCATGGCTTCAGGCTCAGATGCAGAATCCGCAGCCAGAGAAGACCTTCATACGGAACAAAGCGGCCCAAGTGTTCGCCTTGCTTTTTGTTACAGAGTATCTCACTAAGTGGCCCAAGTTTTTTTTTGACATCCTCTCAGTTGTGGACCTAAACCCGAGGGGCGTGGACCTGTACCTGCGGATCCTCATGGCCATCGATTCAGAGCTGGTGGATCGGGACGTGGTTCACACGTCAGAGGCAAGTGGCTTGGAGAACACACTGATAAAAGACACCATGCGGGAGCAGTGCATTCCAAATCTGGTGGAATCGTGGTACCAGATTTTACACAACTACCAGTATACGAATTCAGAAGTGCTGTGCCAGTGCCTTGAAGTAGTTGGGGCCTACGTCTCCTGGATAGACTTATCCCTTATAGCCAATGATAGGTTTATAAATATGCTGCTAGGTCACATGTCCGTAGAGGTTCTACGGGAAGAAGCATGTGACTGCTTGTTCGAGATTGTAAATAAAGGGATGGACCCTGTGGATAAGATGAAACTCGTAGAGTCCCTGTGTCAAGTATTACAGACTGCTGGGTTTTTCAGCATTGACCAGGAAGAAGATTTGGACTTCGTGGCCAGATTTTCTAAGCTGGTAAATGGAATGGGACAGTCGTTAATAGTTAGCTGGACTAAATTAATTAAGAATGGGGCTGTCAAGAATGCGCAGGAGGCACTGGAAGCTATTGAGACAAAAGTGCCACTTATGTTACAGCTGCTAGTTCACGAGGACGATGACATTTCCTCCAACATCATTGGGTTTTGTTATGATTATCTCCATATCCTGAAACAGATGATTGTGGATTCTGCTGTGGGATTAGAAGCCACGTCTGTTGTGATCGGAAAACTCCAGGAATAG
Peptide sequence:
MDEQALLGLNPNADSDFRQRALAYFEQLKISPDAWQVCAEALAQKTYSDDHVKFFCFQVLEHQVKYKYSELSTAQQQLIRETLLSWLQAQMQNPQPEKTFIRNKAAQVFALLFVTEYLTKWPKFFFDILSVVDLNPRGVDLYLRILMAIDSELVDRDVVHTSEASGLENTLIKDTMREQCIPNLVESWYQILHNYQYTNSEVLCQCLEVVGAYVSWIDLSLIANDRFINMLLGHMSVEVLREEACDCLFEIVNKGMDPVDKMKLVESLCQVLQTAGFFSIDQEEDLDFVARFSKLVNGMGQSLIVSWTKLIKNGAVKNAQEALEAIETKVPLMLQLLVHEDDDISSNIIGFCYDYLHILKQMIVDSAVGLEATSVVIGKLQE
IRESfinder result
IRESfinder score
0.574666579
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page