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mmu_circKansl1_1514
Basic information of circular RNA
PanCircBase ID:
mmu_circKansl1_1514
mm39_Chr. Position ID:
chr11|104269510|104316119|-
Gene name:
Kansl1
Transcript:
ENSMUST00000106977.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,45237
Genomic length:
46609
Exon/intron sizes in nt:
142,1372
Flanking exon/introns:
chr11:104259604-104269510|chr11:104316119-104332550
Splice length:
1514
Other database IDs:
CIRCpedia: MMU_CIRCpedia_1197, circAtlas: mmu-Kansl1_0005
circBase: hsa_circ_0044189, circAtlas: hsa-KANSL1_0006
Human Ortholog IDs:
Mature spliced Sequence:
TGTGTTCTCAGGGGAGGCAGCAAGGGGCCGTGGAGCTGGCCTCAGCACTGGGAGAGGCTGGACTTCCTGTCTCTCTGTGCTGAATGGCTGCGATGGCGCCCGCTCTCACTGACGCAGCAGCTGAAGCACACCACATCCGGTTCAAACTGGCTCCCCCATCCTCCACCTTGTCCCCTGGCAGTGCCGAAAATAACGGCAACGCCAATATTCTTATTTCTGCCAACGGAACCAAAAGAAAAGCCATTGCTGCGGAGGATCCCAGTCTAGACTTCCGCAATAATCCTACTAAGGAAGACTTGGGAAAGCTGCAGCCATTGGTGGCATCTTATCTCTGCTCTGATGTAACATCTGTTCCCGCAAAAGAGTCTTTGAAATTGCAAGGCGTTTTCAGCAAGCAGACAGTCCTTAAGTCTCATCCTCTTTTATCTCAGTCCTATGAACTCCGAGCTGAGCTGCTGGGGAGGCAGCCAGTTTTGGAGTTTTCCTTAGAAAACCTTAGAACCATGAATACAAGTGGTCAGACAGCTCTGCCACAAGCGCCTGTAAATGGATTGGCTAAGAAATTGACTAAAAGTTCAACACATTCGGATCATGACAATTCCAGTTCCCTCAATGGGGGAAAACGGTCTCTCACTTCGTCATCTCTACAAGGTGGTGAGGTGGGGGGACCTGACTCTGGGAACTTGAAGGGGGGTATGACCAATTGCACTCTTCCACATAGAAGCCTTGATATACAACACACAACTCTATATAGCAATAATAGCACTGCAAACAAATCTTCTGTTAATTCCATGGACCAGCCGGCACTTCAAGGAAGCAGCAGGTTATCACCTAGTACAGACTCCAGCTCTAACTTGACAAATGTGAAGTTAGAAGTCAAAAAGTCTCCTCTGTCTTCCATTCTTTTCAGTGCTTTAGACTCTGATACAAGGATAACAGCTTTACTGAGGCGGCAGGCTGATATTGAGATCCGTGCCCGAAGGTTACAGAAGCGATTACAGGTTGTGCAAGCCAAGCAGGTGGAGAGACATTTACAGCACCAACTGGGTGGATTTTTGGAGACGACATTGAGTAAACTGCCAAACTTGGAATCCTTAAGGTCCCGGAGCCAGTTGATGTTGACCCGAAAGGCTGAAGCTGCCTTGAGAAAAGCTGCCAGTGAGTCTGCCACTTCAGAGGGACTTAGCAACTTTTTGAAAAGTGATTCAATTTCAGAAGAATTGGAGAGATTTACAGCTAGTGGCATAGCCAACCTGAGGTGCAGTGAGCAAGCGTTTGATTCGGATGTCACAGACAGTAGTTCCGGAGGGGAGTCTGACATTGAAGAGGAAGAACTGACTCGAGCTGATCCTGAGCAATGCCATGTGCCCCTGAAACGTAGGTCTGAATGGAGATGGGCTGCAGACCGAGCAGCTATTGTCAGCCGCTGGAACTGGCTTCAGGCCCATGTTTCTGACTTGGAATATCGAATTCGTCAGCAAACAGATATTTACAAACAGATACGTGCTAATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTCAGGCCCATGTTTCTG
59.47
GACAGGAAGTCCAGCCTCTC
59.47
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TATTGTCAGCCGCTGGAACT
59.39
GACAGGAAGTCCAGCCTCTC
59.47
171
PCR template sequence:
TATTGTCAGCCGCTGGAACTGGCTTCAGGCCCATGTTTCTGACTTGGAATATCGAATTCGTCAGCAAACAGATATTTACAAACAGATACGTGCTAATAAGTGTGTTCTCAGGGGAGGCAGCAAGGGGCCGTGGAGCTGGCCTCAGCACTGGGAGAGGCTGGACTTCCTGTCTCTCTGTGCTGAATGGCTGCGATGGCGCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-199a-5p(1), mmu-miR-7b-5p(1), mmu-miR-135a-5p(1), mmu-miR-130a-3p(1), mmu-miR-7a-5p(1), mmu-miR-125b-5p(1), mmu-miR-143-3p(1), mmu-miR-185-5p(1), mmu-miR-149-5p(1), mmu-miR-494-3p(1), mmu-miR-301b-3p(1), mmu-miR-721(1), mmu-miR-541-5p(1), mmu-miR-362-5p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
ACGTGCTAATAAGTGTGTTCTCAGGG
siRNA sets
AGAACACACTTATTAGCAC, AACACACTTATTAGCACGT, GAGAACACACTTATTAGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKANSL1_1514_ORF_1
0.8166
0.099210995
0.999858583
1698
ORF sequence:
ATGGCTGCGATGGCGCCCGCTCTCACTGACGCAGCAGCTGAAGCACACCACATCCGGTTCAAACTGGCTCCCCCATCCTCCACCTTGTCCCCTGGCAGTGCCGAAAATAACGGCAACGCCAATATTCTTATTTCTGCCAACGGAACCAAAAGAAAAGCCATTGCTGCGGAGGATCCCAGTCTAGACTTCCGCAATAATCCTACTAAGGAAGACTTGGGAAAGCTGCAGCCATTGGTGGCATCTTATCTCTGCTCTGATGTAACATCTGTTCCCGCAAAAGAGTCTTTGAAATTGCAAGGCGTTTTCAGCAAGCAGACAGTCCTTAAGTCTCATCCTCTTTTATCTCAGTCCTATGAACTCCGAGCTGAGCTGCTGGGGAGGCAGCCAGTTTTGGAGTTTTCCTTAGAAAACCTTAGAACCATGAATACAAGTGGTCAGACAGCTCTGCCACAAGCGCCTGTAAATGGATTGGCTAAGAAATTGACTAAAAGTTCAACACATTCGGATCATGACAATTCCAGTTCCCTCAATGGGGGAAAACGGTCTCTCACTTCGTCATCTCTACAAGGTGGTGAGGTGGGGGGACCTGACTCTGGGAACTTGAAGGGGGGTATGACCAATTGCACTCTTCCACATAGAAGCCTTGATATACAACACACAACTCTATATAGCAATAATAGCACTGCAAACAAATCTTCTGTTAATTCCATGGACCAGCCGGCACTTCAAGGAAGCAGCAGGTTATCACCTAGTACAGACTCCAGCTCTAACTTGACAAATGTGAAGTTAGAAGTCAAAAAGTCTCCTCTGTCTTCCATTCTTTTCAGTGCTTTAGACTCTGATACAAGGATAACAGCTTTACTGAGGCGGCAGGCTGATATTGAGATCCGTGCCCGAAGGTTACAGAAGCGATTACAGGTTGTGCAAGCCAAGCAGGTGGAGAGACATTTACAGCACCAACTGGGTGGATTTTTGGAGACGACATTGAGTAAACTGCCAAACTTGGAATCCTTAAGGTCCCGGAGCCAGTTGATGTTGACCCGAAAGGCTGAAGCTGCCTTGAGAAAAGCTGCCAGTGAGTCTGCCACTTCAGAGGGACTTAGCAACTTTTTGAAAAGTGATTCAATTTCAGAAGAATTGGAGAGATTTACAGCTAGTGGCATAGCCAACCTGAGGTGCAGTGAGCAAGCGTTTGATTCGGATGTCACAGACAGTAGTTCCGGAGGGGAGTCTGACATTGAAGAGGAAGAACTGACTCGAGCTGATCCTGAGCAATGCCATGTGCCCCTGAAACGTAGGTCTGAATGGAGATGGGCTGCAGACCGAGCAGCTATTGTCAGCCGCTGGAACTGGCTTCAGGCCCATGTTTCTGACTTGGAATATCGAATTCGTCAGCAAACAGATATTTACAAACAGATACGTGCTAATAAGTGTGTTCTCAGGGGAGGCAGCAAGGGGCCGTGGAGCTGGCCTCAGCACTGGGAGAGGCTGGACTTCCTGTCTCTCTGTGCTGAATGGCTGCGATGGCGCCCGCTCTCACTGACGCAGCAGCTGAAGCACACCACATCCGGTTCAAACTGGCTCCCCCATCCTCCACCTTGTCCCCTGGCAGTGCCGAAAATAACGGCAACGCCAATATTCTTATTTCTGCCAACGGAACCAAAAGAAAAGCCATTGCTGCGGAGGATCCCAGTCTAG
Peptide sequence:
MAAMAPALTDAAAEAHHIRFKLAPPSSTLSPGSAENNGNANILISANGTKRKAIAAEDPSLDFRNNPTKEDLGKLQPLVASYLCSDVTSVPAKESLKLQGVFSKQTVLKSHPLLSQSYELRAELLGRQPVLEFSLENLRTMNTSGQTALPQAPVNGLAKKLTKSSTHSDHDNSSSLNGGKRSLTSSSLQGGEVGGPDSGNLKGGMTNCTLPHRSLDIQHTTLYSNNSTANKSSVNSMDQPALQGSSRLSPSTDSSSNLTNVKLEVKKSPLSSILFSALDSDTRITALLRRQADIEIRARRLQKRLQVVQAKQVERHLQHQLGGFLETTLSKLPNLESLRSRSQLMLTRKAEAALRKAASESATSEGLSNFLKSDSISEELERFTASGIANLRCSEQAFDSDVTDSSSGGESDIEEEELTRADPEQCHVPLKRRSEWRWAADRAAIVSRWNWLQAHVSDLEYRIRQQTDIYKQIRANKCVLRGGSKGPWSWPQHWERLDFLSLCAEWLRWRPLSLTQQLKHTTSGSNWLPHPPPCPLAVPKITATPIFLFLPTEPKEKPLLRRIPV
IRESfinder result
IRESfinder score
0.57081414
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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