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mmu_circKmt2c_2489
Basic information of circular RNA
PanCircBase ID:
mmu_circKmt2c_2489
mm39_Chr. Position ID:
chr5|25486670|25498246|-
Gene name:
Kmt2c
Transcript:
ENSMUST00000172556.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
15,14,13,12,11,10,9,8,7,6
Exon/intron offsets:
0,1431,2394,5378,6033,7317,8817,9036,11141,11434
Genomic length:
11576
Exon/intron sizes in nt:
13,11,37,11,17,10,81,40,00,00,00,00,00,00,000
Flanking exon/introns:
chr5:25486398-25486670|chr5:25498246-25503867
Splice length:
2489
Other database IDs:
CIRCpedia: MMU_CIRCpedia_14451, circAtlas: mmu-Kmt2c_0057
Human Ortholog IDs:
Mature spliced Sequence:
CAGAATAATTTAAGTAATCCTCCAACACCCCCTGCCTCTCTTCCTCCTACACCACCTCCTATGGCTTGCCAGAAGATGGCAAATGGTTTTGCAACGACTGAAGAACTTGCTGGAAAAGCTGGCGTGTTGGTGAGCCATGAAGTTGCCAGAGCTTTAGGACCGAAGCCATTTCAGCTGCCTTTCAGACCTCAGGATGACTTGCTGGCTCGAGCTATTGCTCAAGGCCCGAAGACTGTGGATGTTCCTGCCTCACTTCCAACACCGCCTCATAATAATCATGAAGAATTAAGGATACAGGACCACTATGGTGACCGGGACACTCCCGATAGTTTCGTCCCCTCCTCTTCTCCTGAGAGTGTGGTTGGTGTGGAGGTGAACAAGTACCCAGATCTGTCACTGGTGAAAGAGGAGCCTCCAGAACCTGTGCCGTCCCCCATCATCCCCATTCTTCCCAGCATATCCGGGAAAAATTCAGAATCAAGAAGAAATGACATCAAAACTGAGCCAGGCACTTTATTTTTTACTTCACCTTTTGGTTCATCCCCAAATGGTCCCAGATCGGGTCTTATATCTGTAGCGATCACTCTGCATCCTACAGCTGCTGAGAACATTAGCAGCGTTGTTGCTGCGTTTTCTGACCTTCTTCACGTGAGAATTCCTAACAGCTATGAGGTTAGTAATGCTCCAGATGTTCCACCCATGGGTTTGGTCAGTAGCCACAGAGTAAACCCAAGTTTGGAGTATCGGCAGCATTTGCTTCTTCGTGGGCCTCCACCAGGATCTGCAAATCCTCCCAGATTAGCAACCTCTTACCGGTTGAAGCAACCTAATGTACCATTTCCTCCAACAAGCAATGGTCTTTCTGGGTATAAAGACTCTAGTCATGGTCCAGCAGAAGGTGCGTCGCTCCGACCACAGTGGTGCTGCCACTGTAAGGTGGTTATTCTTGGAAGTGGTGTGCGGAAGTCATGCAAGGATCTGACCTTTGTGAACAAGGGTTCCCGAGAGAACACCAAAAGGATGGAAAAGGATATTGTCTTTTGTAGTAATAACTGCTTTATTCTTTATTCATCAGCTGCACAAGCAAAAAACTCAGACAACAAGGAATCCCTTCCGTCACTGCCACAGTCCCCTATGAAGGAGCCTTCCAAAGCATTTCACCAGTATAGCAACAACATCTCCACTTTGGATGTGCACTGTCTCCCTCAGTTCCAGGAAAAGGTTTCCCCTCCTGCATCACCTCCCATATCCTTCCCTCCAGCCTTTGAAGCAGCCAAAGTCGAGTCCAAGCCTGATGAGCTTAAGGTAACGGTCAAGTTAAAGCCTCGGCTGAGGACTGTTCCTGTTGGGCTTGAAGACTGTAGACCACTGAATAAAAAGTGGAGAGGAATGAAGTGGAAGAAATGGAGCATTCATATTGTCATCCCCAAGGGGACCTTTAAGCCACCTTGTGAGGATGAAATAGATGAGTTTCTAAAGAAATTGGGCACTTGTCTTAAACCTGACCCTGTGCCCAAAGACTGTCGGAAGTGCTGCTTTTGTCATGAGGAAGGGGACGGGCTGACAGATGGGCCAGCACGGCTGCTCAACCTGGACCTGGACCTCTGGGTCCACCTGAACTGTGCTCTGTGGTCTACAGAGGTTTATGAAACACAGGCTGGTGCCTTAATAAATGTGGAGCTAGCGCTGAGGAGAGGACTACAAATGAAGTGTGTCTTCTGTCATAAGACAGGTGCCACCAGTGGATGTCACAGATTCCGATGTACCAACATTTATCATTTTACTTGCGCCACTAAAGCACAATGCATGTTTTTTAAGGACAAAACAATGCTTTGCCCCATGCACAAACCAAAGGGAATCCACGAGCAACAGTTAAGTTACTTTGCAGTCTTCAGGAGGGTCTATGTGCAACGAGATGAGGTGCGGCAGATTGCTAGTATCGTGCAGCGGGGAGAGCGGGACCATACCTTTCGTGTTGGGAGCCTCATCTTCCACACCATTGGCCAGCTGCTTCCACAACAGATGCAAGCATTCCACTCTCCGAAAGCACTCTTCCCAGTGGGCTATGAAGCCAGCCGGTTATACTGGAGCACCCGCTATGCCAACCGACGCTGCCGGTACCTGTGCTCCATTGAGGAGAAAGATGGGCGGCCTGTGTTTGTCATCAGGATTGTAGAGCAAGGCCATGAGGACCTGGTCTTAAGTGATTCATCACCTAAAGATGTTTGGGATAAAATTTTGGAGCCTGTGGCTTGTGTGAGAAAAAAATCTGAAATGCTGCAGCTTTTCCCTGCGTATTTGAAAGGAGAAGACCTGTTTGGCCTGACTGTCTCTGCAGTAGCACGGATAGCTGAATCACTTCCTGGGGTTGAGGCATGTGAAAATTATACCTTCCGATATGGCCGTAATCCTCTCATGGAGCTTCCCCTTGCCGTGAACCCCACAGGTTGTGCCCGTTCTGAACCTAAAATGAGCGCCCATGTCAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTCTCATGGAGCTTCCCC
60.69
CTGGCAAGCCATAGGAGGTG
60.47
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCTCATGGAGCTTCCCCT
60.69
CTGGCAAGCCATAGGAGGTG
60.47
152
PCR template sequence:
CCTTCCGATATGGCCGTAATCCTCTCATGGAGCTTCCCCTTGCCGTGAACCCCACAGGTTGTGCCCGTTCTGAACCTAAAATGAGCGCCCATGTCAAGAGCAGAATAATTTAAGTAATCCTCCAACACCCCCTGCCTCTCTTCCTCCTACACCACCTCCTATGGCTTGCCAGAAGATGGCAAATGGTTTTGCAACGACTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
30
Interacting miRNAs (#binding sites)
mmu-miR-322-5p(2), mmu-miR-203-3p(2), mmu-miR-20b-5p(1), mmu-miR-15a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-103-3p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-15b-5p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-33-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-7a-5p(1), mmu-miR-132-3p(1), mmu-miR-24-3p(1), mmu-miR-136-5p(1), mmu-miR-212-3p(1), mmu-miR-541-5p(1), mmu-miR-107-3p(1), mmu-miR-666-5p(1), mmu-miR-705(1), mmu-miR-342-3p(1), mmu-miR-5101(1), mmu-miR-350-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCATGTCAAGAGCAGAATAATTTAA
siRNA sets
AAATTATTCTGCTCTTGAC, AATTATTCTGCTCTTGACA, TAAATTATTCTGCTCTTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKMT2C_2489_ORF_1
0.8852
0.129916089
0.999999465
2442
ORF sequence:
ATGGCTTGCCAGAAGATGGCAAATGGTTTTGCAACGACTGAAGAACTTGCTGGAAAAGCTGGCGTGTTGGTGAGCCATGAAGTTGCCAGAGCTTTAGGACCGAAGCCATTTCAGCTGCCTTTCAGACCTCAGGATGACTTGCTGGCTCGAGCTATTGCTCAAGGCCCGAAGACTGTGGATGTTCCTGCCTCACTTCCAACACCGCCTCATAATAATCATGAAGAATTAAGGATACAGGACCACTATGGTGACCGGGACACTCCCGATAGTTTCGTCCCCTCCTCTTCTCCTGAGAGTGTGGTTGGTGTGGAGGTGAACAAGTACCCAGATCTGTCACTGGTGAAAGAGGAGCCTCCAGAACCTGTGCCGTCCCCCATCATCCCCATTCTTCCCAGCATATCCGGGAAAAATTCAGAATCAAGAAGAAATGACATCAAAACTGAGCCAGGCACTTTATTTTTTACTTCACCTTTTGGTTCATCCCCAAATGGTCCCAGATCGGGTCTTATATCTGTAGCGATCACTCTGCATCCTACAGCTGCTGAGAACATTAGCAGCGTTGTTGCTGCGTTTTCTGACCTTCTTCACGTGAGAATTCCTAACAGCTATGAGGTTAGTAATGCTCCAGATGTTCCACCCATGGGTTTGGTCAGTAGCCACAGAGTAAACCCAAGTTTGGAGTATCGGCAGCATTTGCTTCTTCGTGGGCCTCCACCAGGATCTGCAAATCCTCCCAGATTAGCAACCTCTTACCGGTTGAAGCAACCTAATGTACCATTTCCTCCAACAAGCAATGGTCTTTCTGGGTATAAAGACTCTAGTCATGGTCCAGCAGAAGGTGCGTCGCTCCGACCACAGTGGTGCTGCCACTGTAAGGTGGTTATTCTTGGAAGTGGTGTGCGGAAGTCATGCAAGGATCTGACCTTTGTGAACAAGGGTTCCCGAGAGAACACCAAAAGGATGGAAAAGGATATTGTCTTTTGTAGTAATAACTGCTTTATTCTTTATTCATCAGCTGCACAAGCAAAAAACTCAGACAACAAGGAATCCCTTCCGTCACTGCCACAGTCCCCTATGAAGGAGCCTTCCAAAGCATTTCACCAGTATAGCAACAACATCTCCACTTTGGATGTGCACTGTCTCCCTCAGTTCCAGGAAAAGGTTTCCCCTCCTGCATCACCTCCCATATCCTTCCCTCCAGCCTTTGAAGCAGCCAAAGTCGAGTCCAAGCCTGATGAGCTTAAGGTAACGGTCAAGTTAAAGCCTCGGCTGAGGACTGTTCCTGTTGGGCTTGAAGACTGTAGACCACTGAATAAAAAGTGGAGAGGAATGAAGTGGAAGAAATGGAGCATTCATATTGTCATCCCCAAGGGGACCTTTAAGCCACCTTGTGAGGATGAAATAGATGAGTTTCTAAAGAAATTGGGCACTTGTCTTAAACCTGACCCTGTGCCCAAAGACTGTCGGAAGTGCTGCTTTTGTCATGAGGAAGGGGACGGGCTGACAGATGGGCCAGCACGGCTGCTCAACCTGGACCTGGACCTCTGGGTCCACCTGAACTGTGCTCTGTGGTCTACAGAGGTTTATGAAACACAGGCTGGTGCCTTAATAAATGTGGAGCTAGCGCTGAGGAGAGGACTACAAATGAAGTGTGTCTTCTGTCATAAGACAGGTGCCACCAGTGGATGTCACAGATTCCGATGTACCAACATTTATCATTTTACTTGCGCCACTAAAGCACAATGCATGTTTTTTAAGGACAAAACAATGCTTTGCCCCATGCACAAACCAAAGGGAATCCACGAGCAACAGTTAAGTTACTTTGCAGTCTTCAGGAGGGTCTATGTGCAACGAGATGAGGTGCGGCAGATTGCTAGTATCGTGCAGCGGGGAGAGCGGGACCATACCTTTCGTGTTGGGAGCCTCATCTTCCACACCATTGGCCAGCTGCTTCCACAACAGATGCAAGCATTCCACTCTCCGAAAGCACTCTTCCCAGTGGGCTATGAAGCCAGCCGGTTATACTGGAGCACCCGCTATGCCAACCGACGCTGCCGGTACCTGTGCTCCATTGAGGAGAAAGATGGGCGGCCTGTGTTTGTCATCAGGATTGTAGAGCAAGGCCATGAGGACCTGGTCTTAAGTGATTCATCACCTAAAGATGTTTGGGATAAAATTTTGGAGCCTGTGGCTTGTGTGAGAAAAAAATCTGAAATGCTGCAGCTTTTCCCTGCGTATTTGAAAGGAGAAGACCTGTTTGGCCTGACTGTCTCTGCAGTAGCACGGATAGCTGAATCACTTCCTGGGGTTGAGGCATGTGAAAATTATACCTTCCGATATGGCCGTAATCCTCTCATGGAGCTTCCCCTTGCCGTGAACCCCACAGGTTGTGCCCGTTCTGAACCTAAAATGAGCGCCCATGTCAAGAGCAGAATAATTTAA
Peptide sequence:
MACQKMANGFATTEELAGKAGVLVSHEVARALGPKPFQLPFRPQDDLLARAIAQGPKTVDVPASLPTPPHNNHEELRIQDHYGDRDTPDSFVPSSSPESVVGVEVNKYPDLSLVKEEPPEPVPSPIIPILPSISGKNSESRRNDIKTEPGTLFFTSPFGSSPNGPRSGLISVAITLHPTAAENISSVVAAFSDLLHVRIPNSYEVSNAPDVPPMGLVSSHRVNPSLEYRQHLLLRGPPPGSANPPRLATSYRLKQPNVPFPPTSNGLSGYKDSSHGPAEGASLRPQWCCHCKVVILGSGVRKSCKDLTFVNKGSRENTKRMEKDIVFCSNNCFILYSSAAQAKNSDNKESLPSLPQSPMKEPSKAFHQYSNNISTLDVHCLPQFQEKVSPPASPPISFPPAFEAAKVESKPDELKVTVKLKPRLRTVPVGLEDCRPLNKKWRGMKWKKWSIHIVIPKGTFKPPCEDEIDEFLKKLGTCLKPDPVPKDCRKCCFCHEEGDGLTDGPARLLNLDLDLWVHLNCALWSTEVYETQAGALINVELALRRGLQMKCVFCHKTGATSGCHRFRCTNIYHFTCATKAQCMFFKDKTMLCPMHKPKGIHEQQLSYFAVFRRVYVQRDEVRQIASIVQRGERDHTFRVGSLIFHTIGQLLPQQMQAFHSPKALFPVGYEASRLYWSTRYANRRCRYLCSIEEKDGRPVFVIRIVEQGHEDLVLSDSSPKDVWDKILEPVACVRKKSEMLQLFPAYLKGEDLFGLTVSAVARIAESLPGVEACENYTFRYGRNPLMELPLAVNPTGCARSEPKMSAHVKSRII
IRESfinder result
IRESfinder score
0.596960823
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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