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mmu_circKmt2c_2947
Basic information of circular RNA
PanCircBase ID:
mmu_circKmt2c_2947
mm39_Chr. Position ID:
chr5|25543410|25582280|-
Gene name:
Kmt2c
Transcript:
ENSMUST00000045291.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
18
Exon/intron indexes:
27,26,25,24,23,22,21,20,19,18,17,16,15,14,13,12,11,10
Exon/intron offsets:
0,6495,8948,11399,12639,13814,14886,15922,16226,20899,21179,25033,27664,34353,36077,36929,37463,38700
Genomic length:
38870
Exon/intron sizes in nt:
1,69,13,11,20,12,92,13,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr5:25535898-25543410|chr5:25582280-25590642
Splice length:
2947
Other database IDs:
CIRCpedia: MMU_CIRCpedia_14471, circAtlas: mmu-Kmt2c_0073
Human Ortholog IDs:
Mature spliced Sequence:
AATTGCAGAATCTGTATAGAATGTGGCACACGATCTAGTACTCAGTGGCACCACAACTGTTTGATATGTGACACTTGTTATCAACAGCAGGATAATTTATGTCCTTTTTGTGGAAAGTGTTACCATCCAGAGTTACAGAAAGATATGCTGCACTGTAATATGTGTAAGAGATGGGTTCACTTAGAATGTGACAAACCAACTGATCAGGAATTGGATTCTCAGCTCAAAGAAGACTATATCTGCATGTATTGTAAACACTTAGGAGCTGAGATAGATCCCTTACATCCAGGGAATGAAGTGGAGATGCCTGAACTACCTACAGATTATGCCAGTGGAATGGAAATTGAAGGTACTGAAGATGAAGTGGTATTTCTGGAGCAGACAGTAAATAAAGATGTCAGTGATCACCAGTGCAGACCTGGAATTGTTCCAGATGCAGTTCAAGTGTACACTGAAGAGCCCCAGAAAAGTAATCCACTAGAAAGCCCTGACACAGTTGGTCTCATTACTTCTGAATCATCTGACAATAAAATGAATCCTGATTTGGCAAATGAGATTGCTCATGAGGTTGATACTGAGAAAACGGAAATGCTTTCTAAAGGGCGACATGTTTGTGAGGAAGATCAAAATGAAGACAGAATGGAAGTGACAGAAAACATCGAAGTCCTTCCACACCAAACCATTGTGCCACAAGAGGACCTGCTGCTGTCAGAGGACTCTGAGGTGGCATCTAAAGAACTAAGCCCTCCAAAATCAGCTCCTGAGACTGCTGCACCAGAAGCCTTACTGTCCCCACACAGCGAAAGGTCCTTATCTTGTAAGGAACCATTGTTGACAGAAAGAGTACAAGAAGAAATGGAACAGAAGGAAAATTCTGAATTCTCCACAGGATGTGTGGATTTTGAAATGACTCTTGCTGTTGACAGTTGTGACAAAGATAGTTCATGCCAAGGAGACAAATATGTAGAGTTACCAGCTGAGGAAGAATCAACATTCTCTTCAGCAACTGACCTGAACAAGGCAGATGTGTCTTCTTCCTCCACACTTTGTTCAGACTTGCCTTCATGTGACATGCTGCACGGTTACCCTCCAGCTTTCAACTCTGCTGCTGGAAGCATCATGCCAACAACATACATCTCAGTCACTCCAAAAATTGGCATGGGTAAACCAGCTATTACCAAAAGAAAATTTTCTCCTGGTAGACCCCGGTCCAAACAGGGGGCTTGGAGTAACCATAACACAGTGAGCCCGCCTTCCTGGGCCCCAGACACTTCAGAAGGCCGGGAAATTTTTAAACCCAGGCAGCTTTCTGGCAGTGCCATTTGGAGCATCAAAGTGGGCCGAGGGTCTGGATTTCCAGGAAAGCGGAGGCCTCGTGGTGCTGGGCTGTCAGGACGAGGTGGCAGAGGCAGGTCTAAACTAAAGAGTGGAATTGGAGCTGTTGTATTACCTGGGGTGTCTGCTGCAGATATTTCATCAAATAAAGATGAAGAAGAAAACTCTATGCACAATACAGTTGTTTTGTTTTCTAGTAGTGACAAGTTCACTTTGCAGCAGGATATGTGTGTAGTTTGTGGCAGTTTCGGCCAAGGAGCAGAAGGAAGATTACTTGCCTGTTCACAGTGTGGTCAATGTTACCATCCATACTGTGTCAGTATTAAGATCACTAAAGTGGTTCTTAGCAAAGGTTGGAGATGTCTTGAGTGCACTGTGTGTGAGGCCTGTGGGAAGGCAACTGACCCTGGAAGACTCTTGCTATGTGATGACTGTGACATAAGCTATCATACCTACTGCCTAGACCCTCCATTGCAGACAGTTCCCAAAGGAGGCTGGAAATGCAAATGGTGTGTTTGGTGCAGACACTGTGGAGCAACATCTGCAGGTTTGAGATGTGAATGGCAGAACAATTACACACAGTGTGCTCCTTGTGCCAGCCTGTCTTCCTGCCCTGTCTGCTGTCGGAACTACAGAGAAGAGGACCTCATTCTGCAGTGTAGACAGTGTGATAGGTGGATGCATGCAGTTTGTCAAAACTTAAATACTGAGGAGGAAGTGGAAAATGTAGCAGACATTGGTTTTGATTGTAGCATGTGCAGACCCTATATGCCTGTGTCTAATGTGCCTTCCTCAGACTGCTGCGACTCTTCTCTTGTGGCACAGATCGTCACAAAAGTGAAAGAGCTAGACCCCCCTAAGACCTACACCCAGGATGGTGTGTGTCTGACCGAGTCAGGGATGAGTCAGCTACAGAGCCTCACAGTCACAGCTCCCAGGAGAAAACGCACAAAACCAAAACTGAAATTGAAGATTATAAATCAGAATAGTGTGGCTGTCCTTCAGACCCCTCCAGACATCCAGTCAGAACATTCAAGAGATGGTGAAATGGATGATAGTCGAGAAGGAGAACTTATGGATTGTGATGGAAAATCTGAATCTAGTCCTGAGCGGGAAGCTGGAGATGATGAAACTAAGGGAATAGAAGGAACAGATGCCATAAAAAAGAGGAAAAGAAAACCATACAGACCAGGTATTGGTGGATTTATGGTACGACAAAGAAGTCGAACAGGACAAGGAAAAGCCAAAAGATCTGTGGTTAGAAAAGATTCTTCCGGCTCTATTTCTGAGCAGTTACCTAGCAGAGATGATGGCTGGAGGGAGCAGTTACCAGATACCCTAGTTGATGAGCCTGTTTCTGTTGCTGAGAACACTGACAAAATAAAGAAGAGATACCGAAAAAGGAAAAATAAGCTTGAAGAAACCTTTCCTGCTTATTTACAAGAAGCATTTTTTGGAAAAGATCTTCTAGATACCAGCAGACAAAACAAGCTGAGTGTAGATAATCTGTCAGAAGATGCAGCTCAGCTTTCATTTAAAACAGGTTTCTTGGATCCTTCCTCAGATCCGCTACTGAGTTCATCTTCTACTTCAGCAAAACCTGGAACTCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGATGCAGCTCAGCTTTCAT
57.58
AACAGTTGTGGTGCCACTGA
60.03
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGATGCAGCTCAGCTTTCATT
58.28
AACAGTTGTGGTGCCACTGA
60.03
159
PCR template sequence:
GAAGATGCAGCTCAGCTTTCATTTAAAACAGGTTTCTTGGATCCTTCCTCAGATCCGCTACTGAGTTCATCTTCTACTTCAGCAAAACCTGGAACTCAGGAATTGCAGAATCTGTATAGAATGTGGCACACGATCTAGTACTCAGTGGCACCACAACTGTTTGATATGTGACACTTGTTATCAACAGCAGGATAATTTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
33
Interacting miRNAs (#binding sites)
mmu-miR-148b-3p(2), mmu-miR-148a-3p(2), mmu-miR-320-3p(2), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-103-3p(1), mmu-miR-221-3p(1), mmu-miR-200c-3p(1), mmu-miR-322-5p(1), mmu-miR-152-3p(1), mmu-miR-216a-5p(1), mmu-miR-217-5p(1), mmu-miR-222-3p(1), mmu-miR-139-5p(1), mmu-miR-495-3p(1), mmu-miR-434-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-22-3p(1), mmu-miR-370-3p(1), mmu-miR-183-5p(1), mmu-miR-758-3p(1), mmu-miR-324-3p(1), mmu-miR-297a-5p(1), mmu-miR-107-3p(1), mmu-miR-27a-5p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-5099(1), mmu-miR-484(1), mmu-miR-452-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGGAACTCAGGAATTGCAGAATCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKMT2C_2947_ORF_1
0.8824
0.053266621
0.999999958
2841
ORF sequence:
ATGCTGCACTGTAATATGTGTAAGAGATGGGTTCACTTAGAATGTGACAAACCAACTGATCAGGAATTGGATTCTCAGCTCAAAGAAGACTATATCTGCATGTATTGTAAACACTTAGGAGCTGAGATAGATCCCTTACATCCAGGGAATGAAGTGGAGATGCCTGAACTACCTACAGATTATGCCAGTGGAATGGAAATTGAAGGTACTGAAGATGAAGTGGTATTTCTGGAGCAGACAGTAAATAAAGATGTCAGTGATCACCAGTGCAGACCTGGAATTGTTCCAGATGCAGTTCAAGTGTACACTGAAGAGCCCCAGAAAAGTAATCCACTAGAAAGCCCTGACACAGTTGGTCTCATTACTTCTGAATCATCTGACAATAAAATGAATCCTGATTTGGCAAATGAGATTGCTCATGAGGTTGATACTGAGAAAACGGAAATGCTTTCTAAAGGGCGACATGTTTGTGAGGAAGATCAAAATGAAGACAGAATGGAAGTGACAGAAAACATCGAAGTCCTTCCACACCAAACCATTGTGCCACAAGAGGACCTGCTGCTGTCAGAGGACTCTGAGGTGGCATCTAAAGAACTAAGCCCTCCAAAATCAGCTCCTGAGACTGCTGCACCAGAAGCCTTACTGTCCCCACACAGCGAAAGGTCCTTATCTTGTAAGGAACCATTGTTGACAGAAAGAGTACAAGAAGAAATGGAACAGAAGGAAAATTCTGAATTCTCCACAGGATGTGTGGATTTTGAAATGACTCTTGCTGTTGACAGTTGTGACAAAGATAGTTCATGCCAAGGAGACAAATATGTAGAGTTACCAGCTGAGGAAGAATCAACATTCTCTTCAGCAACTGACCTGAACAAGGCAGATGTGTCTTCTTCCTCCACACTTTGTTCAGACTTGCCTTCATGTGACATGCTGCACGGTTACCCTCCAGCTTTCAACTCTGCTGCTGGAAGCATCATGCCAACAACATACATCTCAGTCACTCCAAAAATTGGCATGGGTAAACCAGCTATTACCAAAAGAAAATTTTCTCCTGGTAGACCCCGGTCCAAACAGGGGGCTTGGAGTAACCATAACACAGTGAGCCCGCCTTCCTGGGCCCCAGACACTTCAGAAGGCCGGGAAATTTTTAAACCCAGGCAGCTTTCTGGCAGTGCCATTTGGAGCATCAAAGTGGGCCGAGGGTCTGGATTTCCAGGAAAGCGGAGGCCTCGTGGTGCTGGGCTGTCAGGACGAGGTGGCAGAGGCAGGTCTAAACTAAAGAGTGGAATTGGAGCTGTTGTATTACCTGGGGTGTCTGCTGCAGATATTTCATCAAATAAAGATGAAGAAGAAAACTCTATGCACAATACAGTTGTTTTGTTTTCTAGTAGTGACAAGTTCACTTTGCAGCAGGATATGTGTGTAGTTTGTGGCAGTTTCGGCCAAGGAGCAGAAGGAAGATTACTTGCCTGTTCACAGTGTGGTCAATGTTACCATCCATACTGTGTCAGTATTAAGATCACTAAAGTGGTTCTTAGCAAAGGTTGGAGATGTCTTGAGTGCACTGTGTGTGAGGCCTGTGGGAAGGCAACTGACCCTGGAAGACTCTTGCTATGTGATGACTGTGACATAAGCTATCATACCTACTGCCTAGACCCTCCATTGCAGACAGTTCCCAAAGGAGGCTGGAAATGCAAATGGTGTGTTTGGTGCAGACACTGTGGAGCAACATCTGCAGGTTTGAGATGTGAATGGCAGAACAATTACACACAGTGTGCTCCTTGTGCCAGCCTGTCTTCCTGCCCTGTCTGCTGTCGGAACTACAGAGAAGAGGACCTCATTCTGCAGTGTAGACAGTGTGATAGGTGGATGCATGCAGTTTGTCAAAACTTAAATACTGAGGAGGAAGTGGAAAATGTAGCAGACATTGGTTTTGATTGTAGCATGTGCAGACCCTATATGCCTGTGTCTAATGTGCCTTCCTCAGACTGCTGCGACTCTTCTCTTGTGGCACAGATCGTCACAAAAGTGAAAGAGCTAGACCCCCCTAAGACCTACACCCAGGATGGTGTGTGTCTGACCGAGTCAGGGATGAGTCAGCTACAGAGCCTCACAGTCACAGCTCCCAGGAGAAAACGCACAAAACCAAAACTGAAATTGAAGATTATAAATCAGAATAGTGTGGCTGTCCTTCAGACCCCTCCAGACATCCAGTCAGAACATTCAAGAGATGGTGAAATGGATGATAGTCGAGAAGGAGAACTTATGGATTGTGATGGAAAATCTGAATCTAGTCCTGAGCGGGAAGCTGGAGATGATGAAACTAAGGGAATAGAAGGAACAGATGCCATAAAAAAGAGGAAAAGAAAACCATACAGACCAGGTATTGGTGGATTTATGGTACGACAAAGAAGTCGAACAGGACAAGGAAAAGCCAAAAGATCTGTGGTTAGAAAAGATTCTTCCGGCTCTATTTCTGAGCAGTTACCTAGCAGAGATGATGGCTGGAGGGAGCAGTTACCAGATACCCTAGTTGATGAGCCTGTTTCTGTTGCTGAGAACACTGACAAAATAAAGAAGAGATACCGAAAAAGGAAAAATAAGCTTGAAGAAACCTTTCCTGCTTATTTACAAGAAGCATTTTTTGGAAAAGATCTTCTAGATACCAGCAGACAAAACAAGCTGAGTGTAGATAATCTGTCAGAAGATGCAGCTCAGCTTTCATTTAAAACAGGTTTCTTGGATCCTTCCTCAGATCCGCTACTGAGTTCATCTTCTACTTCAGCAAAACCTGGAACTCAGGAATTGCAGAATCTGTATAGAATGTGGCACACGATCTAG
Peptide sequence:
MLHCNMCKRWVHLECDKPTDQELDSQLKEDYICMYCKHLGAEIDPLHPGNEVEMPELPTDYASGMEIEGTEDEVVFLEQTVNKDVSDHQCRPGIVPDAVQVYTEEPQKSNPLESPDTVGLITSESSDNKMNPDLANEIAHEVDTEKTEMLSKGRHVCEEDQNEDRMEVTENIEVLPHQTIVPQEDLLLSEDSEVASKELSPPKSAPETAAPEALLSPHSERSLSCKEPLLTERVQEEMEQKENSEFSTGCVDFEMTLAVDSCDKDSSCQGDKYVELPAEEESTFSSATDLNKADVSSSSTLCSDLPSCDMLHGYPPAFNSAAGSIMPTTYISVTPKIGMGKPAITKRKFSPGRPRSKQGAWSNHNTVSPPSWAPDTSEGREIFKPRQLSGSAIWSIKVGRGSGFPGKRRPRGAGLSGRGGRGRSKLKSGIGAVVLPGVSAADISSNKDEEENSMHNTVVLFSSSDKFTLQQDMCVVCGSFGQGAEGRLLACSQCGQCYHPYCVSIKITKVVLSKGWRCLECTVCEACGKATDPGRLLLCDDCDISYHTYCLDPPLQTVPKGGWKCKWCVWCRHCGATSAGLRCEWQNNYTQCAPCASLSSCPVCCRNYREEDLILQCRQCDRWMHAVCQNLNTEEEVENVADIGFDCSMCRPYMPVSNVPSSDCCDSSLVAQIVTKVKELDPPKTYTQDGVCLTESGMSQLQSLTVTAPRRKRTKPKLKLKIINQNSVAVLQTPPDIQSEHSRDGEMDDSREGELMDCDGKSESSPEREAGDDETKGIEGTDAIKKRKRKPYRPGIGGFMVRQRSRTGQGKAKRSVVRKDSSGSISEQLPSRDDGWREQLPDTLVDEPVSVAENTDKIKKRYRKRKNKLEETFPAYLQEAFFGKDLLDTSRQNKLSVDNLSEDAAQLSFKTGFLDPSSDPLLSSSSTSAKPGTQELQNLYRMWHTI
IRESfinder result
IRESfinder score
0.600518818
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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