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mmu_circKmt2a_3064
Basic information of circular RNA
PanCircBase ID:
mmu_circKmt2a_3064
mm39_Chr. Position ID:
chr9|44756685|44761351|-
Gene name:
Kmt2a
Transcript:
ENSMUST00000002095.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,1464,2015
Genomic length:
4666
Exon/intron sizes in nt:
2,35,17,82,651
Flanking exon/introns:
chr9:44754719-44756685|chr9:44761351-44764234
Splice length:
3064
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTAAAGCTAGTCCTCGAAAACCTCGCGGGAGACCTAGAAGTGGCTCTGACCGGAACCCAGCCATCCTCTCAGACCCATCTGTGTTTTCCCCTCTAAACAAATCAGAGACCAAATCTGCAGATAAAATCAAGAAGAAAGATTCTAAGAGCATAGAAAAGAAGAGAGGAAGACCTCCTACCTTCCCTGGGGTAAAAATCAAAATCACACATGGAAAGGACATTGCAGAGTTAACACAAGGAAGCAAAGAGGATAGCCTGAAAAAAGTTAAACGGACCCCTTCTGCCATGTTCCAGCAAGCCACAAAGATTAAAAAGTTAAGAGCAGGTAAACTGTCTCCTCTCAAGTCTAAGTTTAAGACAGGGAAGCTCCAAATAGGAAGGAAGGGGGTGCAGATTGTAAGACGGCGAGGAAGGCCTCCATCCACAGAACGGATAAAGACCCCTTCAGGTCTTCTCATTAATTCTGAACTGGAAAAGCCTCAGAAGGTCCGGAAAGACAAGGAAGGAACACCCCCTCTCACAAAAGAAGATAAGACAGTTGTCAGACAAAGCCCTCGAAGGATTAAACCGGTCAGGATTATTCCTTCTTGTAAAAGGACAGATGCCACAATTGCTAAGCAACTCCTGCAGAGGGCAAAGAAGGGGGCGCAGAAGAAAATTGAGAAAGAAGCGGCTCAGCTGCAGGGAAGGAAGGTGAAGACGCAGGTCAAGAATATCCGGCAGTTCATCATGCCTGTGGTCAGCGCCATCTCCTCGAGGATCATCAAGACTCCCCGGCGGTTCATAGAGGATGAGGATTATGACCCACCCATGAAGATTGCACGCCTGGAATCTACCCCGAACAGCAGATTCAGCGCCACGTCCTGTGGATCCTCGGAGAAGTCCAGTGCCGCCTCCCAGCACTCCTCTCAGATGTCTTCAGACTCCTCCCGATCCAGCAGCCCCAGTATCGATACCACCTCAGATTCTCAGGCCTCTGAAGAGATCCAGGCACTTCCCGAGGAGCGCAGTAATACCCCCGAAGTTCATACTCCACTGCCTATTTCCCAGTCCCCAGAAAATGAGAGTAATGATAGGAGAAGCAGACGGTATTCGATGTCTGAGAGAAGCTTTGGATCTAGAGCAACTAAAAAATTACCAACTCTACAAAGTGCCCCCCAGCAGCAGACCTCCTCCTCGCCACCTCCGCCTCTGCTCACCCCTCCCCCTCCACTGCAGCCAGCCTCCGGCATCTCTGACCACACACCTTGGCTTATGCCTCCCACCATCCCTTTAGCATCACCATTCCTGCCTGCTTCTGCTGCTCCCATGCAAGGGAAGCGGAAATCTATTTTGCGGGAGCCAACATTTAGGTGGACTTCTTTAAAACATTCGAGGTCAGAGCCACAGTACTTTTCCTCAGCAAAGTATGCCAAAGAAGGTCTGATTCGCAAACCAATATTTGATAACTTCCGACCCCCTCCGCTGACTCCCGAGGATGTCGGCTTTGCTTCTGGTTTTTCTGCATCTGGTACTGCCGCTTCGGCCCGGTTGTTTTCACCACTCCATTCTGGAACAAGGTTTGATATTCATAAAAGGAGCCCCATTCTGAGAGCTCCCAGATTTACTCCAAGTGAGGCACACTCTAGAATATTTGAGTCTGTGACCTTGCCTAGTAATCGAACTTCTTCTGGAGCGTCCTCTTCGGGAGTATCTAATAGAAAAAGGAAAAGGAAAGTGTTTAGTCCGATTCGGTCTGAACCAAGATCACCTTCTCACTCCATGAGGACAAGAAGCGGAAGGCTTAGCACCTCTGAGCTGTCACCTCTCACTCCCCCGTCTTCTGTCTCCTCCTCATTAAGCATTCCCGTTAGTCCTCTTGCCGCTAGTGCCTTAAACCCAACTTTTACTTTTCCTTCTCATTCCCTAACTCAGTCTGGGGAATCTACAGAAAAAAATCAGAGAGCAAGGAAGCAGACTAGTGCTCTGGCAGAGCCATTCTCGTCAAATAGCCCTGCTCTCTTCCCATGGTTCACCCCAGGCTCTCAGACCGAGAAGGGGAGAAAGAAAGACACAGCCCCGGAGGAGCTGTCCAAAGATCGCGATGCTGACAAGAGCGTGGAGAAGGACAAGAGTAGAGAGAGAGACCGGGAGCGAGAGAAGGAGAATAAGCGGGAATCAAGGAAAGAGAAAAGGAAAAAGGGCTCAGACATTCAGAGTAGCTCTGCTTTGTATCCTGTGGGTCGGGTTTCCAAAGAGAAGGTTGCTGGAGAAGATGTTGGCACTTCATCTTCTGCCAAAAAAGCAACAGGGCGGAAGAAGTCTTCGTCACTTGATTCTGGGGCTGATGTTGCTCCTGTGACTCTTGGGGACACAACAGCTGTCAAAGCCAAAATTCTTATAAAGAAAGGGAGAGGAAATCTGGAAAAAAACAACTTGGACCTCGGCCCAGCTGCCCCGTCCCTGGAGAAGGAGAGAACCCCCTGCCTTTCCGCTCCTTCATCTAGCACTGTTAAACACTCCACTTCCTCCATAGGCTCCATGTTGGCTCAGGCAGACAAGCTTCCAATGACTGACAAGAGGGTTGCCAGCCTCCTAAAAAAGGCCAAAGCCCAGCTCTGCAAGATTGAGAAGAGTAAGAGTCTCAAACAGACTGACCAGCCCAAAGCACAGGGTCAAGAAAGTGATTCATCAGAAACCTCTGTTCGAGGACCCCGGATTAAACATGTCTGCAGAAGAGCTGCTGTTGCCCTTGGCCGCAAACGAGCTGTGTTTCCTGATGACATGCCCACCTTGAGTGCCTTACCGTGGGAAGAACGAGAAAAAATTTTGTCTTCCATGGGGAATGATGACAAGTCATCAGTTGCTGGCTCAGAAGATGCCGAGCCTCTTGCTCCTCCCATCAAACCAATTAAGCCTGTCACCAGAAACAAGGCACCTCAGGAGCCTCCGGTGAAGAAAGGGCGGCGATCAAGGCGGTGCGGACAATGTCCTGGCTGCCAGGTGCCTGAGGACTGTGGCATTTGCACTAATTGCCTGGACAAGCCCAAGTTTGGTGGCCGCAATATAAAGAAGCAATGCTGCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGACTGTGGCATTTGCACT
60.18
ATGGGTCTGAGAGGATGGCT
60.03
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGGACTGTGGCATTTGCA
60.18
ATGGGTCTGAGAGGATGGCT
60.03
156
PCR template sequence:
AATGTCCTGGCTGCCAGGTGCCTGAGGACTGTGGCATTTGCACTAATTGCCTGGACAAGCCCAAGTTTGGTGGCCGCAATATAAAGAAGCAATGCTGCAATTAAAGCTAGTCCTCGAAAACCTCGCGGGAGACCTAGAAGTGGCTCTGACCGGAACCCAGCCATCCTCTCAGACCCATCTGTGTTTTCCCCTCTAAACAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
23
Interacting miRNAs (#binding sites)
mmu-miR-207(4), mmu-miR-31-5p(2), mmu-miR-540-3p(2), mmu-miR-124-3p(1), mmu-miR-7b-5p(1), mmu-miR-103-3p(1), mmu-let-7e-5p(1), mmu-miR-34c-5p(1), mmu-miR-19b-3p(1), mmu-miR-122-5p(1), mmu-miR-130a-3p(1), mmu-miR-298-5p(1), mmu-miR-7a-5p(1), mmu-miR-381-3p(1), mmu-miR-214-3p(1), mmu-miR-483-5p(1), mmu-miR-301b-3p(1), mmu-miR-382-5p(1), mmu-miR-34b-5p(1), mmu-miR-107-3p(1), mmu-miR-680(1), mmu-miR-190b-5p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCAATGCTGCAATTAAAGCTAGTCC
siRNA sets
GACTAGCTTTAATTGCAGC,ACTAGCTTTAATTGCAGCA,CTTTAATTGCAGCATTGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKMT2A_3064_ORF_1
0.8664
0.158212757
0.999999957
2784
ORF sequence:
ATGTTCCAGCAAGCCACAAAGATTAAAAAGTTAAGAGCAGGTAAACTGTCTCCTCTCAAGTCTAAGTTTAAGACAGGGAAGCTCCAAATAGGAAGGAAGGGGGTGCAGATTGTAAGACGGCGAGGAAGGCCTCCATCCACAGAACGGATAAAGACCCCTTCAGGTCTTCTCATTAATTCTGAACTGGAAAAGCCTCAGAAGGTCCGGAAAGACAAGGAAGGAACACCCCCTCTCACAAAAGAAGATAAGACAGTTGTCAGACAAAGCCCTCGAAGGATTAAACCGGTCAGGATTATTCCTTCTTGTAAAAGGACAGATGCCACAATTGCTAAGCAACTCCTGCAGAGGGCAAAGAAGGGGGCGCAGAAGAAAATTGAGAAAGAAGCGGCTCAGCTGCAGGGAAGGAAGGTGAAGACGCAGGTCAAGAATATCCGGCAGTTCATCATGCCTGTGGTCAGCGCCATCTCCTCGAGGATCATCAAGACTCCCCGGCGGTTCATAGAGGATGAGGATTATGACCCACCCATGAAGATTGCACGCCTGGAATCTACCCCGAACAGCAGATTCAGCGCCACGTCCTGTGGATCCTCGGAGAAGTCCAGTGCCGCCTCCCAGCACTCCTCTCAGATGTCTTCAGACTCCTCCCGATCCAGCAGCCCCAGTATCGATACCACCTCAGATTCTCAGGCCTCTGAAGAGATCCAGGCACTTCCCGAGGAGCGCAGTAATACCCCCGAAGTTCATACTCCACTGCCTATTTCCCAGTCCCCAGAAAATGAGAGTAATGATAGGAGAAGCAGACGGTATTCGATGTCTGAGAGAAGCTTTGGATCTAGAGCAACTAAAAAATTACCAACTCTACAAAGTGCCCCCCAGCAGCAGACCTCCTCCTCGCCACCTCCGCCTCTGCTCACCCCTCCCCCTCCACTGCAGCCAGCCTCCGGCATCTCTGACCACACACCTTGGCTTATGCCTCCCACCATCCCTTTAGCATCACCATTCCTGCCTGCTTCTGCTGCTCCCATGCAAGGGAAGCGGAAATCTATTTTGCGGGAGCCAACATTTAGGTGGACTTCTTTAAAACATTCGAGGTCAGAGCCACAGTACTTTTCCTCAGCAAAGTATGCCAAAGAAGGTCTGATTCGCAAACCAATATTTGATAACTTCCGACCCCCTCCGCTGACTCCCGAGGATGTCGGCTTTGCTTCTGGTTTTTCTGCATCTGGTACTGCCGCTTCGGCCCGGTTGTTTTCACCACTCCATTCTGGAACAAGGTTTGATATTCATAAAAGGAGCCCCATTCTGAGAGCTCCCAGATTTACTCCAAGTGAGGCACACTCTAGAATATTTGAGTCTGTGACCTTGCCTAGTAATCGAACTTCTTCTGGAGCGTCCTCTTCGGGAGTATCTAATAGAAAAAGGAAAAGGAAAGTGTTTAGTCCGATTCGGTCTGAACCAAGATCACCTTCTCACTCCATGAGGACAAGAAGCGGAAGGCTTAGCACCTCTGAGCTGTCACCTCTCACTCCCCCGTCTTCTGTCTCCTCCTCATTAAGCATTCCCGTTAGTCCTCTTGCCGCTAGTGCCTTAAACCCAACTTTTACTTTTCCTTCTCATTCCCTAACTCAGTCTGGGGAATCTACAGAAAAAAATCAGAGAGCAAGGAAGCAGACTAGTGCTCTGGCAGAGCCATTCTCGTCAAATAGCCCTGCTCTCTTCCCATGGTTCACCCCAGGCTCTCAGACCGAGAAGGGGAGAAAGAAAGACACAGCCCCGGAGGAGCTGTCCAAAGATCGCGATGCTGACAAGAGCGTGGAGAAGGACAAGAGTAGAGAGAGAGACCGGGAGCGAGAGAAGGAGAATAAGCGGGAATCAAGGAAAGAGAAAAGGAAAAAGGGCTCAGACATTCAGAGTAGCTCTGCTTTGTATCCTGTGGGTCGGGTTTCCAAAGAGAAGGTTGCTGGAGAAGATGTTGGCACTTCATCTTCTGCCAAAAAAGCAACAGGGCGGAAGAAGTCTTCGTCACTTGATTCTGGGGCTGATGTTGCTCCTGTGACTCTTGGGGACACAACAGCTGTCAAAGCCAAAATTCTTATAAAGAAAGGGAGAGGAAATCTGGAAAAAAACAACTTGGACCTCGGCCCAGCTGCCCCGTCCCTGGAGAAGGAGAGAACCCCCTGCCTTTCCGCTCCTTCATCTAGCACTGTTAAACACTCCACTTCCTCCATAGGCTCCATGTTGGCTCAGGCAGACAAGCTTCCAATGACTGACAAGAGGGTTGCCAGCCTCCTAAAAAAGGCCAAAGCCCAGCTCTGCAAGATTGAGAAGAGTAAGAGTCTCAAACAGACTGACCAGCCCAAAGCACAGGGTCAAGAAAGTGATTCATCAGAAACCTCTGTTCGAGGACCCCGGATTAAACATGTCTGCAGAAGAGCTGCTGTTGCCCTTGGCCGCAAACGAGCTGTGTTTCCTGATGACATGCCCACCTTGAGTGCCTTACCGTGGGAAGAACGAGAAAAAATTTTGTCTTCCATGGGGAATGATGACAAGTCATCAGTTGCTGGCTCAGAAGATGCCGAGCCTCTTGCTCCTCCCATCAAACCAATTAAGCCTGTCACCAGAAACAAGGCACCTCAGGAGCCTCCGGTGAAGAAAGGGCGGCGATCAAGGCGGTGCGGACAATGTCCTGGCTGCCAGGTGCCTGAGGACTGTGGCATTTGCACTAATTGCCTGGACAAGCCCAAGTTTGGTGGCCGCAATATAAAGAAGCAATGCTGCAATTAA
Peptide sequence:
MFQQATKIKKLRAGKLSPLKSKFKTGKLQIGRKGVQIVRRRGRPPSTERIKTPSGLLINSELEKPQKVRKDKEGTPPLTKEDKTVVRQSPRRIKPVRIIPSCKRTDATIAKQLLQRAKKGAQKKIEKEAAQLQGRKVKTQVKNIRQFIMPVVSAISSRIIKTPRRFIEDEDYDPPMKIARLESTPNSRFSATSCGSSEKSSAASQHSSQMSSDSSRSSSPSIDTTSDSQASEEIQALPEERSNTPEVHTPLPISQSPENESNDRRSRRYSMSERSFGSRATKKLPTLQSAPQQQTSSSPPPPLLTPPPPLQPASGISDHTPWLMPPTIPLASPFLPASAAPMQGKRKSILREPTFRWTSLKHSRSEPQYFSSAKYAKEGLIRKPIFDNFRPPPLTPEDVGFASGFSASGTAASARLFSPLHSGTRFDIHKRSPILRAPRFTPSEAHSRIFESVTLPSNRTSSGASSSGVSNRKRKRKVFSPIRSEPRSPSHSMRTRSGRLSTSELSPLTPPSSVSSSLSIPVSPLAASALNPTFTFPSHSLTQSGESTEKNQRARKQTSALAEPFSSNSPALFPWFTPGSQTEKGRKKDTAPEELSKDRDADKSVEKDKSRERDREREKENKRESRKEKRKKGSDIQSSSALYPVGRVSKEKVAGEDVGTSSSAKKATGRKKSSSLDSGADVAPVTLGDTTAVKAKILIKKGRGNLEKNNLDLGPAAPSLEKERTPCLSAPSSSTVKHSTSSIGSMLAQADKLPMTDKRVASLLKKAKAQLCKIEKSKSLKQTDQPKAQGQESDSSETSVRGPRIKHVCRRAAVALGRKRAVFPDDMPTLSALPWEEREKILSSMGNDDKSSVAGSEDAEPLAPPIKPIKPVTRNKAPQEPPVKKGRRSRRCGQCPGCQVPEDCGICTNCLDKPKFGGRNIKKQCCN
IRESfinder result
IRESfinder score
0.486981405
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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