top of page
mmu_circMtif2_1539
Basic information of circular RNA
PanCircBase ID:
mmu_circMtif2_1539
mm39_Chr. Position ID:
chr11|29483225|29492509|+
Gene name:
Mtif2
Transcript:
ENSMUST00000020749.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
4,5,6,7,8,9,10,11,12
Exon/intron offsets:
0,606,1864,3607,5443,6842,7383,8115,9119
Genomic length:
9284
Exon/intron sizes in nt:
17,21,61,17,71,40,12,50,00,00,00,00,000
Flanking exon/introns:
chr11:29480692-29483225|chr11:29492509-29494269
Splice length:
1539
Other database IDs:
circBase: mmu_circ_0002946, CIRCpedia: MMU_CIRCpedia_15490, circAtlas: mmu-Mtif2_0012
Human Ortholog IDs:
Mature spliced Sequence:
ATTGTGTATACGAAGCTTTATTGAACACTGCCATTGACGTAGATTCATTAGAAGCAAACTCACATTTAGATGAAGTCTGGATCAAAGAAGTTATAAAGAAGGCAGGAATGAAGCTGAAATGGAGCAAATTAAAACAGGAAAGAATTAGAGAAAATAAAGATGCTGTGAGAAGGCCTGGGACAGATCCAGCTTTATTAAAACCAAGGTCCCCAGTTGTTACTGTAATGGGCCATGTTGATCATGGGAAAACGACCTTACTTGACAAACTTCGAGAAACTCAAGTTGCAGCGATGGAAGTCGGAGGCATCACTCAACACATTGGTGCTTTTCTTGTCTCTCTGCCTTCTGGAGAAAAGATAACTTTTCTTGATACTCCTGGACATGCTGCCTTCTCAGCAATGAGAGCCAGAGGAGCTCAGGTCACCGACATTGTTGTGTTGGTTGTAGCTGCAGATGATGGGGTAATGAAACAAACTGTGGAATCCATTCAGCATGCAAAAGATGCAGAAGTTCCTATTATCCTTGCAATCAATAAGTGCGACAAGACAGATGCTGATCCTGAAAAGGTGAAAAAAGAGCTCCTAGCTTACGATGTGGTGTGTGAAGAGTATGGTGGTGATGTTCAAGCAGTGCACGTCTCTGCACTTACGGGCGATAACCTGATGGCTTTGGCAGAAGCAACAATTGCTCTCGCAGAAATCTTGGAACTGAAAGCAGATCCCACCGGTCCAGTGGAAGGAACAGTAATAGAGTCTTTCACAGACAAAGGAAGAGGTCCTGTTACAACAGCTATAATTCAAAGAGGAACTCTGAGAAAAGGCTCAATTCTAGTTGCTGGGAAGAGTTGGGCAAAAGTTCGACTAATATTTGATGAAAATGGAAAAATACTTAATGAGGCCTATCCCAGCATGCCAGTGGGAATCATAGGCTGGAGAGACCTTCCTTCTGCAGGAGATGAAATTCTTGAAGTAGAATCTGAGCCAAGGGCCCGTGAAGTTATTGAATGGAGGAAGTCTGAGCAAAAAGAAGAAAAAGGCAAAGATGACCTGAAAATAATGGAAGAAAAGCGAAGGGAACACCAAGAAGCGCATCGGAAAGCCCGTGAGAAGTATGGCAGTCTGCACTGGAAAGAGAGATCATATATAAAGTTCCTTGAAAGGAAACAACAGAGACCCTTAAAGCCCAAAGAAAAGGTAGAAAGGCAATCAAATGTACTTCCTATAATTATTAAAGGTGACGTTGATGGGTCTGTGGAGGCCATCTTGAACCTTCTGGATACCTACGATGCTTCCCACGAATGTGAACTCGAATTAGTACATTTTGGATTGGGTGACATCAGTGAAAATGATGTTACCTTTGCTGAGACATTTGATGGTGTTATTTATGGTTTTAATGTGGAGGCAGGCAGTGCTATTCAGCAGTCAGCTGCACAAAAGGGAGTTAAGATTAAACTTCACAAAATCATCTACCATCTTATTGAAGATTTGCAGGAGGAACTAAGCAGCAGATTGCCCCACACACTGGAGGAGTACCCAATAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGGAGGAACTAAGCAGCA
60.04
ACTTCTTTGATCCAGACTTCATCT
57.63
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAGGAGGAACTAAGCAGC
60.04
ACTTCTTTGATCCAGACTTCATCT
57.63
145
PCR template sequence:
GTTAAGATTAAACTTCACAAAATCATCTACCATCTTATTGAAGATTTGCAGGAGGAACTAAGCAGCAGATTGCCCCACACACTGGAGGAGTACCCAATAGATTGTGTATACGAAGCTTTATTGAACACTGCCATTGACGTAGATTCATTAGAAGCAAACTCACATTTAGATGAAGTCTGGATCAAAGAAGTTATAAAGAA
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-23b-3p(1), mmu-miR-199a-5p(1), mmu-miR-103-3p(1), mmu-miR-34c-5p(1), mmu-miR-29b-3p(1), mmu-miR-152-3p(1), mmu-miR-148a-3p(1), mmu-miR-320-3p(1), mmu-miR-23a-3p(1), mmu-miR-24-3p(1), mmu-miR-136-5p(1), mmu-miR-194-5p(1), mmu-miR-467b-5p(1), mmu-miR-34b-5p(1), mmu-miR-107-3p(1), mmu-miR-802-5p(1), mmu-miR-129-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGTACCCAATAGATTGTGTATACGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMTIF2_1539_ORF_1
1.041
0.101333479
0.99999999
2970
ORF sequence:
ATGAAGCTGAAATGGAGCAAATTAAAACAGGAAAGAATTAGAGAAAATAAAGATGCTGTGAGAAGGCCTGGGACAGATCCAGCTTTATTAAAACCAAGGTCCCCAGTTGTTACTGTAATGGGCCATGTTGATCATGGGAAAACGACCTTACTTGACAAACTTCGAGAAACTCAAGTTGCAGCGATGGAAGTCGGAGGCATCACTCAACACATTGGTGCTTTTCTTGTCTCTCTGCCTTCTGGAGAAAAGATAACTTTTCTTGATACTCCTGGACATGCTGCCTTCTCAGCAATGAGAGCCAGAGGAGCTCAGGTCACCGACATTGTTGTGTTGGTTGTAGCTGCAGATGATGGGGTAATGAAACAAACTGTGGAATCCATTCAGCATGCAAAAGATGCAGAAGTTCCTATTATCCTTGCAATCAATAAGTGCGACAAGACAGATGCTGATCCTGAAAAGGTGAAAAAAGAGCTCCTAGCTTACGATGTGGTGTGTGAAGAGTATGGTGGTGATGTTCAAGCAGTGCACGTCTCTGCACTTACGGGCGATAACCTGATGGCTTTGGCAGAAGCAACAATTGCTCTCGCAGAAATCTTGGAACTGAAAGCAGATCCCACCGGTCCAGTGGAAGGAACAGTAATAGAGTCTTTCACAGACAAAGGAAGAGGTCCTGTTACAACAGCTATAATTCAAAGAGGAACTCTGAGAAAAGGCTCAATTCTAGTTGCTGGGAAGAGTTGGGCAAAAGTTCGACTAATATTTGATGAAAATGGAAAAATACTTAATGAGGCCTATCCCAGCATGCCAGTGGGAATCATAGGCTGGAGAGACCTTCCTTCTGCAGGAGATGAAATTCTTGAAGTAGAATCTGAGCCAAGGGCCCGTGAAGTTATTGAATGGAGGAAGTCTGAGCAAAAAGAAGAAAAAGGCAAAGATGACCTGAAAATAATGGAAGAAAAGCGAAGGGAACACCAAGAAGCGCATCGGAAAGCCCGTGAGAAGTATGGCAGTCTGCACTGGAAAGAGAGATCATATATAAAGTTCCTTGAAAGGAAACAACAGAGACCCTTAAAGCCCAAAGAAAAGGTAGAAAGGCAATCAAATGTACTTCCTATAATTATTAAAGGTGACGTTGATGGGTCTGTGGAGGCCATCTTGAACCTTCTGGATACCTACGATGCTTCCCACGAATGTGAACTCGAATTAGTACATTTTGGATTGGGTGACATCAGTGAAAATGATGTTACCTTTGCTGAGACATTTGATGGTGTTATTTATGGTTTTAATGTGGAGGCAGGCAGTGCTATTCAGCAGTCAGCTGCACAAAAGGGAGTTAAGATTAAACTTCACAAAATCATCTACCATCTTATTGAAGATTTGCAGGAGGAACTAAGCAGCAGATTGCCCCACACACTGGAGGAGTACCCAATAGATTGTGTATACGAAGCTTTATTGAACACTGCCATTGACGTAGATTCATTAGAAGCAAACTCACATTTAGATGAAGTCTGGATCAAAGAAGTTATAAAGAAGGCAGGAATGAAGCTGAAATGGAGCAAATTAAAACAGGAAAGAATTAGAGAAAATAAAGATGCTGTGAGAAGGCCTGGGACAGATCCAGCTTTATTAAAACCAAGGTCCCCAGTTGTTACTGTAATGGGCCATGTTGATCATGGGAAAACGACCTTACTTGACAAACTTCGAGAAACTCAAGTTGCAGCGATGGAAGTCGGAGGCATCACTCAACACATTGGTGCTTTTCTTGTCTCTCTGCCTTCTGGAGAAAAGATAACTTTTCTTGATACTCCTGGACATGCTGCCTTCTCAGCAATGAGAGCCAGAGGAGCTCAGGTCACCGACATTGTTGTGTTGGTTGTAGCTGCAGATGATGGGGTAATGAAACAAACTGTGGAATCCATTCAGCATGCAAAAGATGCAGAAGTTCCTATTATCCTTGCAATCAATAAGTGCGACAAGACAGATGCTGATCCTGAAAAGGTGAAAAAAGAGCTCCTAGCTTACGATGTGGTGTGTGAAGAGTATGGTGGTGATGTTCAAGCAGTGCACGTCTCTGCACTTACGGGCGATAACCTGATGGCTTTGGCAGAAGCAACAATTGCTCTCGCAGAAATCTTGGAACTGAAAGCAGATCCCACCGGTCCAGTGGAAGGAACAGTAATAGAGTCTTTCACAGACAAAGGAAGAGGTCCTGTTACAACAGCTATAATTCAAAGAGGAACTCTGAGAAAAGGCTCAATTCTAGTTGCTGGGAAGAGTTGGGCAAAAGTTCGACTAATATTTGATGAAAATGGAAAAATACTTAATGAGGCCTATCCCAGCATGCCAGTGGGAATCATAGGCTGGAGAGACCTTCCTTCTGCAGGAGATGAAATTCTTGAAGTAGAATCTGAGCCAAGGGCCCGTGAAGTTATTGAATGGAGGAAGTCTGAGCAAAAAGAAGAAAAAGGCAAAGATGACCTGAAAATAATGGAAGAAAAGCGAAGGGAACACCAAGAAGCGCATCGGAAAGCCCGTGAGAAGTATGGCAGTCTGCACTGGAAAGAGAGATCATATATAAAGTTCCTTGAAAGGAAACAACAGAGACCCTTAAAGCCCAAAGAAAAGGTAGAAAGGCAATCAAATGTACTTCCTATAATTATTAAAGGTGACGTTGATGGGTCTGTGGAGGCCATCTTGAACCTTCTGGATACCTACGATGCTTCCCACGAATGTGAACTCGAATTAGTACATTTTGGATTGGGTGACATCAGTGAAAATGATGTTACCTTTGCTGAGACATTTGATGGTGTTATTTATGGTTTTAATGTGGAGGCAGGCAGTGCTATTCAGCAGTCAGCTGCACAAAAGGGAGTTAAGATTAAACTTCACAAAATCATCTACCATCTTATTGAAGATTTGCAGGAGGAACTAAGCAGCAGATTGCCCCACACACTGGAGGAGTACCCAATA
Peptide sequence:
MKLKWSKLKQERIRENKDAVRRPGTDPALLKPRSPVVTVMGHVDHGKTTLLDKLRETQVAAMEVGGITQHIGAFLVSLPSGEKITFLDTPGHAAFSAMRARGAQVTDIVVLVVAADDGVMKQTVESIQHAKDAEVPIILAINKCDKTDADPEKVKKELLAYDVVCEEYGGDVQAVHVSALTGDNLMALAEATIALAEILELKADPTGPVEGTVIESFTDKGRGPVTTAIIQRGTLRKGSILVAGKSWAKVRLIFDENGKILNEAYPSMPVGIIGWRDLPSAGDEILEVESEPRAREVIEWRKSEQKEEKGKDDLKIMEEKRREHQEAHRKAREKYGSLHWKERSYIKFLERKQQRPLKPKEKVERQSNVLPIIIKGDVDGSVEAILNLLDTYDASHECELELVHFGLGDISENDVTFAETFDGVIYGFNVEAGSAIQQSAAQKGVKIKLHKIIYHLIEDLQEELSSRLPHTLEEYPIDCVYEALLNTAIDVDSLEANSHLDEVWIKEVIKKAGMKLKWSKLKQERIRENKDAVRRPGTDPALLKPRSPVVTVMGHVDHGKTTLLDKLRETQVAAMEVGGITQHIGAFLVSLPSGEKITFLDTPGHAAFSAMRARGAQVTDIVVLVVAADDGVMKQTVESIQHAKDAEVPIILAINKCDKTDADPEKVKKELLAYDVVCEEYGGDVQAVHVSALTGDNLMALAEATIALAEILELKADPTGPVEGTVIESFTDKGRGPVTTAIIQRGTLRKGSILVAGKSWAKVRLIFDENGKILNEAYPSMPVGIIGWRDLPSAGDEILEVESEPRAREVIEWRKSEQKEEKGKDDLKIMEEKRREHQEAHRKAREKYGSLHWKERSYIKFLERKQQRPLKPKEKVERQSNVLPIIIKGDVDGSVEAILNLLDTYDASHECELELVHFGLGDISENDVTFAETFDGVIYGFNVEAGSAIQQSAAQKGVKIKLHKIIYHLIEDLQEELSSRLPHTLEEYPI
IRESfinder result
IRESfinder score
0.546419334
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page