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mmu_circKansl1l_2058
Basic information of circular RNA
PanCircBase ID:
mmu_circKansl1l_2058
mm39_Chr. Position ID:
chr1|66774795|66841327|-
Gene name:
Kansl1l
Transcript:
ENSMUST00000068168.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
8,7,6,5,4,3,2
Exon/intron offsets:
0,2414,26411,37269,37785,42330,65412
Genomic length:
66532
Exon/intron sizes in nt:
1,08,16,32,05,12,21,98,00,00,000
Flanking exon/introns:
chr1:66765967-66774795|chr1:66841327-66856532
Splice length:
2058
Other database IDs:
circAtlas: mmu-Kansl1l_0008
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_146464
Human Ortholog IDs:
Mature spliced Sequence:
GCTTCCAGTAATTATCTCCAGGATTCGCCATGACCCCAGCTCTGAAGGAGGCAACAACAAAGGGTATCTGCTTTTCATCTTTGCCAAATACCATGGAATCTGACAAGATGCTGTGCATGGAAAGTCCGAGAACTGTAGATGAAAAGCTTAAGGGAGGAGACACTTTCTCTCAGATGCTGGGATTTCCGACTCCTGAACCTACTCTAAATACTAATTTTGTGAATTTAAAACATTTTGCCTCCCCTCAGGCTTCAAAACATTTTCAGACAGTTCTTTTAATGAGTTCTAATTCAACACTAAATAAGTATAATGAGAATTATAACCAAAAGAAAGTAATGGAGTCCAACTGCAGTAAACTGAAAAATGTACTGTGCAATGGCAGCAGCATTCAGCTCAGTAAGATCTGCCCTTCTCACTCCGAAAACGAGTTCATCAAAAAGGAACTCTCGGATACCACAAGCCAGTGCATGAAAGATATACAAATCGTTCTGGATTCAAATCTCACCAAAGACGCTAATGTAGACAGACTACATCTGCAAAACTGTAAATGGTACCAAAAGAATGCACTTTTGGATAAATTCACTGATACTAAGATTAAAAAGGGTTTATTGCAATGTACTCAAAAGAAAATTGGACCTAGCCACTCAGATGTGCCTACTAGTTCCTCAGCTGCTGAAAAAGAGCAGGAAGTGAATGCTCGTTTACTTCATTGTGTGAGTAAACAGAAAATTTTACTTAGCCAGGCTAGAAGAACTCAGAAACACTTGCAGATGCTCCTGGCAAAGCATGTTGTTAAGCACTATGGTCAACAGATGAAATTTTCTATGAAACATCAGCTGCCCACAATGAAGATCTTTCATGAACCCACAACAGTTCTGAGTAATAGTTTACTTGAACACACTGAAATTAAGCCAGAAGTCAACATATTGGCTTCAGAGAATAAGTTTTGGGATGATACAAACAATGGCTTTTCTCAGTGTACAGCTGCAGAAATCCAAAGATTTGCACTGTCTGCTACAGGGCTGTTGTCTCATGTTGAAGAGGGTCTGGACTCTGACGCCACCGATAGCAGCTCAGATGACGAGTTGGATGAATATACCATTAGAAAAAATGTGGCAGTCAACTCTAGTACTGAATGGAAGTGGCTTGTAGACAGAGCACAAGTTGGCAGCCGATGGACTTGGCTTCAAGCTCAGATTTCAGAGCTGGAATACAAAATCCAGCAGCTAACAGATATCCACAGGCAGATTCGTGCCTCTAAGGGGATAGTGATCTTAGAAGAATGTCAGCTTCCAAAAGACATTTTGAAAAAACAAATACAGTTTTCAAACCAAGCAGTTTCATTAAACACTTCAGTGAATTCTCAGGTTCCCCAGAGGAGTGAAGAGCCTTTACCAGAACACGATTTTGAGATGTCACCAAGCAGCCCTACACTACTTCTTCGAAACATAGAGAAACAGAGTGCACAGTTGACTGAGATCATTAACAGTTTGATTGCCCCTCTCAACTTGTCTCCAACTTCATCACCCCTCTCTTCCAAATCCTGTAGCCACAAATGTCTGGCTAATGGCATTTCCAGAAGTGCTTCAGAGAATTTAGATGAGCTCTCTTCCTCCAGTAGCTGGTTACTTAATCAGAAGCACAGTAAGAAAAGGAGAAAAGACAGGACAAGATTGAAATCTCCATCCTTGGCTATCATGAGTACAGCTGCGCGAACAAGGCCCCTTCAAAGTTTCCATAAGAGAAAACTCTACAGATTGAGTCCCACTTTTTACTGGACTCCCGAGACTTTACCTTCAAAAGAAGCATTTTTAAGTAGCACACAGACGCCTTACACGGGATCACCGTTCAGTTGGGACAACTGGGAACAGAGTTCCAGGTCTCACCTGTTAAGAGAACAGGTTTCCAAACTCGATTCCTCCTTCCATCCTGTTTTGTCATTGCCATCAGAAATTCCCCTTCATCTTCATTTTGAGACCTTATTCAAGAAGACCGACATGAAAGGAGAGCTTGCTGAAAATCAATTTGTAGGTGACTGTCTCATATCACCGCCACCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGACCGACATGAAAGGAGAGC
59.79
GCAGATACCCTTTGTTGTTGCC
60.35
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAAGAAGACCGACATGAAAGGA
59.68
ACCCTTTGTTGTTGCCTCCT
59.74
140
PCR template sequence:
CTTCATCTTCATTTTGAGACCTTATTCAAGAAGACCGACATGAAAGGAGAGCTTGCTGAAAATCAATTTGTAGGTGACTGTCTCATATCACCGCCACCTGGCTTCCAGTAATTATCTCCAGGATTCGCCATGACCCCAGCTCTGAAGGAGGCAACAACAAAGGGTATCTGCTTTTCATCTTTGCCAAATACCATGGAATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-182-5p(2), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-32-5p(1), mmu-miR-375-3p(1), mmu-miR-19b-3p(1), mmu-miR-19a-3p(1), mmu-miR-139-5p(1), mmu-miR-136-5p(1), mmu-miR-433-5p(1), mmu-miR-363-3p(1), mmu-miR-382-3p(1), mmu-miR-218-5p(1), mmu-miR-377-3p(1), mmu-miR-5101(1), mmu-miR-335-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCACCGCCACCTGGCTTCCAGTAATT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKANSL1L_2058_ORF_1
0.6858
0.019752792
0.999978298
2040
ORF sequence:
ATGACCCCAGCTCTGAAGGAGGCAACAACAAAGGGTATCTGCTTTTCATCTTTGCCAAATACCATGGAATCTGACAAGATGCTGTGCATGGAAAGTCCGAGAACTGTAGATGAAAAGCTTAAGGGAGGAGACACTTTCTCTCAGATGCTGGGATTTCCGACTCCTGAACCTACTCTAAATACTAATTTTGTGAATTTAAAACATTTTGCCTCCCCTCAGGCTTCAAAACATTTTCAGACAGTTCTTTTAATGAGTTCTAATTCAACACTAAATAAGTATAATGAGAATTATAACCAAAAGAAAGTAATGGAGTCCAACTGCAGTAAACTGAAAAATGTACTGTGCAATGGCAGCAGCATTCAGCTCAGTAAGATCTGCCCTTCTCACTCCGAAAACGAGTTCATCAAAAAGGAACTCTCGGATACCACAAGCCAGTGCATGAAAGATATACAAATCGTTCTGGATTCAAATCTCACCAAAGACGCTAATGTAGACAGACTACATCTGCAAAACTGTAAATGGTACCAAAAGAATGCACTTTTGGATAAATTCACTGATACTAAGATTAAAAAGGGTTTATTGCAATGTACTCAAAAGAAAATTGGACCTAGCCACTCAGATGTGCCTACTAGTTCCTCAGCTGCTGAAAAAGAGCAGGAAGTGAATGCTCGTTTACTTCATTGTGTGAGTAAACAGAAAATTTTACTTAGCCAGGCTAGAAGAACTCAGAAACACTTGCAGATGCTCCTGGCAAAGCATGTTGTTAAGCACTATGGTCAACAGATGAAATTTTCTATGAAACATCAGCTGCCCACAATGAAGATCTTTCATGAACCCACAACAGTTCTGAGTAATAGTTTACTTGAACACACTGAAATTAAGCCAGAAGTCAACATATTGGCTTCAGAGAATAAGTTTTGGGATGATACAAACAATGGCTTTTCTCAGTGTACAGCTGCAGAAATCCAAAGATTTGCACTGTCTGCTACAGGGCTGTTGTCTCATGTTGAAGAGGGTCTGGACTCTGACGCCACCGATAGCAGCTCAGATGACGAGTTGGATGAATATACCATTAGAAAAAATGTGGCAGTCAACTCTAGTACTGAATGGAAGTGGCTTGTAGACAGAGCACAAGTTGGCAGCCGATGGACTTGGCTTCAAGCTCAGATTTCAGAGCTGGAATACAAAATCCAGCAGCTAACAGATATCCACAGGCAGATTCGTGCCTCTAAGGGGATAGTGATCTTAGAAGAATGTCAGCTTCCAAAAGACATTTTGAAAAAACAAATACAGTTTTCAAACCAAGCAGTTTCATTAAACACTTCAGTGAATTCTCAGGTTCCCCAGAGGAGTGAAGAGCCTTTACCAGAACACGATTTTGAGATGTCACCAAGCAGCCCTACACTACTTCTTCGAAACATAGAGAAACAGAGTGCACAGTTGACTGAGATCATTAACAGTTTGATTGCCCCTCTCAACTTGTCTCCAACTTCATCACCCCTCTCTTCCAAATCCTGTAGCCACAAATGTCTGGCTAATGGCATTTCCAGAAGTGCTTCAGAGAATTTAGATGAGCTCTCTTCCTCCAGTAGCTGGTTACTTAATCAGAAGCACAGTAAGAAAAGGAGAAAAGACAGGACAAGATTGAAATCTCCATCCTTGGCTATCATGAGTACAGCTGCGCGAACAAGGCCCCTTCAAAGTTTCCATAAGAGAAAACTCTACAGATTGAGTCCCACTTTTTACTGGACTCCCGAGACTTTACCTTCAAAAGAAGCATTTTTAAGTAGCACACAGACGCCTTACACGGGATCACCGTTCAGTTGGGACAACTGGGAACAGAGTTCCAGGTCTCACCTGTTAAGAGAACAGGTTTCCAAACTCGATTCCTCCTTCCATCCTGTTTTGTCATTGCCATCAGAAATTCCCCTTCATCTTCATTTTGAGACCTTATTCAAGAAGACCGACATGAAAGGAGAGCTTGCTGAAAATCAATTTGTAGGTGACTGTCTCATATCACCGCCACCTGGCTTCCAGTAA
Peptide sequence:
MTPALKEATTKGICFSSLPNTMESDKMLCMESPRTVDEKLKGGDTFSQMLGFPTPEPTLNTNFVNLKHFASPQASKHFQTVLLMSSNSTLNKYNENYNQKKVMESNCSKLKNVLCNGSSIQLSKICPSHSENEFIKKELSDTTSQCMKDIQIVLDSNLTKDANVDRLHLQNCKWYQKNALLDKFTDTKIKKGLLQCTQKKIGPSHSDVPTSSSAAEKEQEVNARLLHCVSKQKILLSQARRTQKHLQMLLAKHVVKHYGQQMKFSMKHQLPTMKIFHEPTTVLSNSLLEHTEIKPEVNILASENKFWDDTNNGFSQCTAAEIQRFALSATGLLSHVEEGLDSDATDSSSDDELDEYTIRKNVAVNSSTEWKWLVDRAQVGSRWTWLQAQISELEYKIQQLTDIHRQIRASKGIVILEECQLPKDILKKQIQFSNQAVSLNTSVNSQVPQRSEEPLPEHDFEMSPSSPTLLLRNIEKQSAQLTEIINSLIAPLNLSPTSSPLSSKSCSHKCLANGISRSASENLDELSSSSSWLLNQKHSKKRRKDRTRLKSPSLAIMSTAARTRPLQSFHKRKLYRLSPTFYWTPETLPSKEAFLSSTQTPYTGSPFSWDNWEQSSRSHLLREQVSKLDSSFHPVLSLPSEIPLHLHFETLFKKTDMKGELAENQFVGDCLISPPPGFQ
IRESfinder result
IRESfinder score
0.747027231
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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