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mmu_circKatnal2_889
Basic information of circular RNA
PanCircBase ID:
mmu_circKatnal2_889
mm39_Chr. Position ID:
chr18|77090126|77105323|-
Gene name:
Katnal2
Transcript:
ENSMUST00000126153.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
11,10,9,8,7,6,5,4,3
Exon/intron offsets:
0,306,2292,5077,5354,8516,9553,13571,15030
Genomic length:
15197
Exon/intron sizes in nt:
11,96,49,97,89,99,91,20,00,000
Flanking exon/introns:
chr18:77085386-77090126|chr18:77105323-77106880
Splice length:
889
Other database IDs:
CIRCpedia: MMU_CIRCpedia_228091
circBase: hsa_circ_0108517, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_156961
Human Ortholog IDs:
Mature spliced Sequence:
CTACATGGATGCAGCTAAGGCTTTGGAGGAGGAGACCAAACTGGGATTACGGCGCTTTGAAGTTTGTGACAACGTTGACCTGGAAACTATTTTGATGGAATATGAGAGCTATTATTTTGTAAAGTTCCAGAAGTACCCCAAAGTGGTTAAGAAGGCCCCGGACCCAGTGGAAAATAATTTACCGTCACGAAGTGGAGGGAAGAACAAAAGGCTGACGAATGACAGTTGTCAAAATCTCCCCAAGATATGTCACCAGAAGTCACGACCTAAAACTTCAGCAGTGAAGACAGGGGACACCAAATCTGTCAAGGAACACCTTAAACAGGTCAAGGAGAGTGTCACTGACACTCAAGCAGAGAGCACTGACTTCGGCCTGAACATATCAAAAATCCACAAAGACCAGCCAGAGGAAAAGGCCCAACCACGAAGAGGCCAAATCATTGACTTCCGAGGACTGCTCTCAGACGCTATCAAAGGAGCCACAAGTGAATTTGCATTGAACACCTTTGAATGTAACCCAGACCCTTCAGAGCGATTGCTGAAACCTCTGAGTGCATTTATTGGCATGAACAGTGAGATGCGAGAACTGGCAGCGGTGGTGAGCCGGGACATTTATCTCCATAATCCCAACATAAAGTGGAATGACATTATTGGACTGGACGCAGCCAAGCAGCTAGTCAAAGAAGCCGTTGTGTACCCAATAAGATACCCGCAGCTCTTCACAGGAATTCTTTCCCCGTGGAAAGGACTGCTGCTTTACGGCCCCCCAGGCACAGGGAAGACTTTGCTGGCCAAAGCGGTGGCCACCGAATGCAAAACCACCTTCTTTAACATTTCTGCATCCACTATTGTCAGCAAATGGAGAGGAGATTCCGAAAAACTGGTCCGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCACCGAATGCAAAACCACC
60.32
TCACAAACTTCAAAGCGCCG
59.97
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCACCGAATGCAAAACCACC
60.32
CACAAACTTCAAAGCGCCGT
60.25
154
PCR template sequence:
GGCCAAAGCGGTGGCCACCGAATGCAAAACCACCTTCTTTAACATTTCTGCATCCACTATTGTCAGCAAATGGAGAGGAGATTCCGAAAAACTGGTCCGGCTACATGGATGCAGCTAAGGCTTTGGAGGAGGAGACCAAACTGGGATTACGGCGCTTTGAAGTTTGTGACAACGTTGACCTGGAAACTATTTTGATGGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-181a-5p(1), mmu-miR-322-5p(1), mmu-miR-181b-5p(1), mmu-miR-136-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAACTGGTCCGGCTACATGGATGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKATNAL2_889_ORF_1
0.9324
0.249550916
0.981763121
903
ORF sequence:
ATGGATGCAGCTAAGGCTTTGGAGGAGGAGACCAAACTGGGATTACGGCGCTTTGAAGTTTGTGACAACGTTGACCTGGAAACTATTTTGATGGAATATGAGAGCTATTATTTTGTAAAGTTCCAGAAGTACCCCAAAGTGGTTAAGAAGGCCCCGGACCCAGTGGAAAATAATTTACCGTCACGAAGTGGAGGGAAGAACAAAAGGCTGACGAATGACAGTTGTCAAAATCTCCCCAAGATATGTCACCAGAAGTCACGACCTAAAACTTCAGCAGTGAAGACAGGGGACACCAAATCTGTCAAGGAACACCTTAAACAGGTCAAGGAGAGTGTCACTGACACTCAAGCAGAGAGCACTGACTTCGGCCTGAACATATCAAAAATCCACAAAGACCAGCCAGAGGAAAAGGCCCAACCACGAAGAGGCCAAATCATTGACTTCCGAGGACTGCTCTCAGACGCTATCAAAGGAGCCACAAGTGAATTTGCATTGAACACCTTTGAATGTAACCCAGACCCTTCAGAGCGATTGCTGAAACCTCTGAGTGCATTTATTGGCATGAACAGTGAGATGCGAGAACTGGCAGCGGTGGTGAGCCGGGACATTTATCTCCATAATCCCAACATAAAGTGGAATGACATTATTGGACTGGACGCAGCCAAGCAGCTAGTCAAAGAAGCCGTTGTGTACCCAATAAGATACCCGCAGCTCTTCACAGGAATTCTTTCCCCGTGGAAAGGACTGCTGCTTTACGGCCCCCCAGGCACAGGGAAGACTTTGCTGGCCAAAGCGGTGGCCACCGAATGCAAAACCACCTTCTTTAACATTTCTGCATCCACTATTGTCAGCAAATGGAGAGGAGATTCCGAAAAACTGGTCCGGCTACATGGATGCAGCTAA
Peptide sequence:
MDAAKALEEETKLGLRRFEVCDNVDLETILMEYESYYFVKFQKYPKVVKKAPDPVENNLPSRSGGKNKRLTNDSCQNLPKICHQKSRPKTSAVKTGDTKSVKEHLKQVKESVTDTQAESTDFGLNISKIHKDQPEEKAQPRRGQIIDFRGLLSDAIKGATSEFALNTFECNPDPSERLLKPLSAFIGMNSEMRELAAVVSRDIYLHNPNIKWNDIIGLDAAKQLVKEAVVYPIRYPQLFTGILSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKLVRLHGCS
IRESfinder result
IRESfinder score
0.537108236
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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