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mmu_circHnrnpul2_1272
Basic information of circular RNA
PanCircBase ID:
mmu_circHnrnpul2_1272
mm39_Chr. Position ID:
chr19|8801584|8808696|+
Gene name:
Hnrnpul2
Transcript:
ENSMUST00000096753.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
5,6,7,8,9,10,11,12,13
Exon/intron offsets:
0,185,639,1050,1751,2423,5529,6667,7004
Genomic length:
7112
Exon/intron sizes in nt:
91,11,32,64,12,31,29,10,00,00,00,000
Flanking exon/introns:
chr19:8801033-8801584|chr19:8808696-8808818
Splice length:
1272
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTTGGTGAAGACGAGTTCTCCTACGGTTTTGACGGAAGAGGACTCAAGGCAGAAAACGGGCAGTTTGAGGAATTTGGCCAGACTTTTGGGGAGAATGATGTTATTGGCTGTTTTGCTAATTTTGAGACTGAAGAAGTTGAGCTTTCCTTCTCCAAGAATGGAGAAGACTTGGGTGTGGCATTCCGAATTAGCAAGGAGTCTCTGGCAGATCGAGCCCTTCTACCCCATGTCCTTTGCAAGAATTGTGTCGTAGAATTAAACTTTGGTCAGAAGGAGGAGCCCTTTTTCCCACCACCAGAAGAGTTTGTGTTCATCCATGCTGTGCCTGTTGAGGAACGTGTGCGGACTGCAGTCCCTCCCAAGACCATAGAGGAGTGTGAGGTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGATGAAGGGACTTGAGGAGCCAGAGATGGACCCCAAAAGCCGAGACCTCTTAGTTCAGCAAGCCTCCCAGTGCCTTAGTAAGCTGGTCCAGATTGCTTCACGATCAAAGAGGAATTTTATTCTTGATCAGTGTAATGTGTACAACTCTGGCCAACGAAGGAAGTTACTGCTGTTCAAGACATTCTCCAGGAAGGTGGTGGTAGTTGTTCCTAATGAGGAAGATTGGAAGAGGAGGCTGGAGTTGAGGAAAGAAGTGGAGGGAGATGATGTGCCTGAGTCTATAATGCTGGAGATGAAAGCCAACTTCTCTCTGCCTGAGAAATGCGACTATATGGATGAGGTGACATATGGGGAGCTGGAAAAAGAGGAAGCTCAACCCATTGTTACTAAATACAAGGAGGAAGCAAGGAAGCTACTGCCCCCCTCTGAGAAGCGTACAAACCGCCGGAACAACCGCAACAAGAGAAACCGGCAGAACCGAAGCCGAGGCCAAGGCTATGTGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGGGGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAACGATTCTACAGTCGAGA
56.26
TCACCAAGCTGTGAACAGGA
59.16
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAACGATTCTACAGTCGAGA
56.26
TCACCAAGCTGTGAACAGGAA
59.79
165
PCR template sequence:
TAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGATGTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTTGGTGAAGACG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-452-3p(2), mmu-miR-205-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-298-5p(1), mmu-miR-132-3p(1), mmu-miR-214-3p(1), mmu-miR-149-5p(1), mmu-miR-212-3p(1), mmu-miR-324-3p(1), mmu-miR-146b-5p(1), mmu-miR-323-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATACAACCGGGATGTAACTCAGAATC
siRNA sets
ATTCTGAGTTACATCCCGG, GATTCTGAGTTACATCCCG, TGAGTTACATCCCGGTTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHNRNPUL2_1272_ORF_1
1.0015
0.296821657
0.999999888
2526
ORF sequence:
ATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTTGGTGAAGACGAGTTCTCCTACGGTTTTGACGGAAGAGGACTCAAGGCAGAAAACGGGCAGTTTGAGGAATTTGGCCAGACTTTTGGGGAGAATGATGTTATTGGCTGTTTTGCTAATTTTGAGACTGAAGAAGTTGAGCTTTCCTTCTCCAAGAATGGAGAAGACTTGGGTGTGGCATTCCGAATTAGCAAGGAGTCTCTGGCAGATCGAGCCCTTCTACCCCATGTCCTTTGCAAGAATTGTGTCGTAGAATTAAACTTTGGTCAGAAGGAGGAGCCCTTTTTCCCACCACCAGAAGAGTTTGTGTTCATCCATGCTGTGCCTGTTGAGGAACGTGTGCGGACTGCAGTCCCTCCCAAGACCATAGAGGAGTGTGAGGTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGATGAAGGGACTTGAGGAGCCAGAGATGGACCCCAAAAGCCGAGACCTCTTAGTTCAGCAAGCCTCCCAGTGCCTTAGTAAGCTGGTCCAGATTGCTTCACGATCAAAGAGGAATTTTATTCTTGATCAGTGTAATGTGTACAACTCTGGCCAACGAAGGAAGTTACTGCTGTTCAAGACATTCTCCAGGAAGGTGGTGGTAGTTGTTCCTAATGAGGAAGATTGGAAGAGGAGGCTGGAGTTGAGGAAAGAAGTGGAGGGAGATGATGTGCCTGAGTCTATAATGCTGGAGATGAAAGCCAACTTCTCTCTGCCTGAGAAATGCGACTATATGGATGAGGTGACATATGGGGAGCTGGAAAAAGAGGAAGCTCAACCCATTGTTACTAAATACAAGGAGGAAGCAAGGAAGCTACTGCCCCCCTCTGAGAAGCGTACAAACCGCCGGAACAACCGCAACAAGAGAAACCGGCAGAACCGAAGCCGAGGCCAAGGCTATGTGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGGGGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGATGTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTTGGTGAAGACGAGTTCTCCTACGGTTTTGACGGAAGAGGACTCAAGGCAGAAAACGGGCAGTTTGAGGAATTTGGCCAGACTTTTGGGGAGAATGATGTTATTGGCTGTTTTGCTAATTTTGAGACTGAAGAAGTTGAGCTTTCCTTCTCCAAGAATGGAGAAGACTTGGGTGTGGCATTCCGAATTAGCAAGGAGTCTCTGGCAGATCGAGCCCTTCTACCCCATGTCCTTTGCAAGAATTGTGTCGTAGAATTAAACTTTGGTCAGAAGGAGGAGCCCTTTTTCCCACCACCAGAAGAGTTTGTGTTCATCCATGCTGTGCCTGTTGAGGAACGTGTGCGGACTGCAGTCCCTCCCAAGACCATAGAGGAGTGTGAGGTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGATGAAGGGACTTGAGGAGCCAGAGATGGACCCCAAAAGCCGAGACCTCTTAGTTCAGCAAGCCTCCCAGTGCCTTAGTAAGCTGGTCCAGATTGCTTCACGATCAAAGAGGAATTTTATTCTTGATCAGTGTAATGTGTACAACTCTGGCCAACGAAGGAAGTTACTGCTGTTCAAGACATTCTCCAGGAAGGTGGTGGTAGTTGTTCCTAATGAGGAAGATTGGAAGAGGAGGCTGGAGTTGAGGAAAGAAGTGGAGGGAGATGATGTGCCTGAGTCTATAATGCTGGAGATGAAAGCCAACTTCTCTCTGCCTGAGAAATGCGACTATATGGATGAGGTGACATATGGGGAGCTGGAAAAAGAGGAAGCTCAACCCATTGTTACTAAATACAAGGAGGAAGCAAGGAAGCTACTGCCCCCCTCTGAGAAGCGTACAAACCGCCGGAACAACCGCAACAAGAGAAACCGGCAGAACCGAAGCCGAGGCCAAGGCTATGTGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGGGGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT
Peptide sequence:
MKEGCTEVSLLRVGWSVDFSCSQLGEDEFSYGFDGRGLKAENGQFEEFGQTFGENDVIGCFANFETEEVELSFSKNGEDLGVAFRISKESLADRALLPHVLCKNCVVELNFGQKEEPFFPPPEEFVFIHAVPVEERVRTAVPPKTIEECEVILMVGLPGSGKTQWALKYAKDNPERRYNVLGAETVLTQMRMKGLEEPEMDPKSRDLLVQQASQCLSKLVQIASRSKRNFILDQCNVYNSGQRRKLLLFKTFSRKVVVVVPNEEDWKRRLELRKEVEGDDVPESIMLEMKANFSLPEKCDYMDEVTYGELEKEEAQPIVTKYKEEARKLLPPSEKRTNRRNNRNKRNRQNRSRGQGYVGGQRRGYDNRAYGQQYWGQSGNRGGYRNFYDRYRGDYERFYSRDYEYNRYRDYYRQYNRDVTQNLPMKEGCTEVSLLRVGWSVDFSCSQLGEDEFSYGFDGRGLKAENGQFEEFGQTFGENDVIGCFANFETEEVELSFSKNGEDLGVAFRISKESLADRALLPHVLCKNCVVELNFGQKEEPFFPPPEEFVFIHAVPVEERVRTAVPPKTIEECEVILMVGLPGSGKTQWALKYAKDNPERRYNVLGAETVLTQMRMKGLEEPEMDPKSRDLLVQQASQCLSKLVQIASRSKRNFILDQCNVYNSGQRRKLLLFKTFSRKVVVVVPNEEDWKRRLELRKEVEGDDVPESIMLEMKANFSLPEKCDYMDEVTYGELEKEEAQPIVTKYKEEARKLLPPSEKRTNRRNNRNKRNRQNRSRGQGYVGGQRRGYDNRAYGQQYWGQSGNRGGYRNFYDRYRGDYERFYSRDYEYNRYRDYYRQYNRD
IRESfinder result
IRESfinder score
0.47526299
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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