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mmu_circTenm3_1472
Basic information of circular RNA
PanCircBase ID:
mmu_circTenm3_1472
mm39_Chr. Position ID:
chr8|48788623|48848709|-
Gene name:
Tenm3
Transcript:
ENSMUST00000033965.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
11,10,9,8,7,6,5,4
Exon/intron offsets:
0,5365,6668,7026,7643,13610,31722,59847
Genomic length:
60086
Exon/intron sizes in nt:
1,86,20,11,95,10,22,11,00,00,00,000
Flanking exon/introns:
chr8:48766299-48788623|chr8:48848709-48870042
Splice length:
1472
Other database IDs:
CIRCpedia: MMU_CIRCpedia_214494, circAtlas: mmu-Tenm3_0018
Human Ortholog IDs:
Mature spliced Sequence:
GCATTTCCTATTCAAAACAGGGACAGGGACGACGCCACTGTTCAGTACGGCAACCCCGGGATACACAATGGCATCTGGCTCTGTTTATTCTCCGCCTACCCGGCCACTTCCTAGAAACACCCTATCAAGAAGTGCTTTTAAATTCAAGAAGTCTTCAAAGTACTGCAGCTGGAGGTGCACCGCACTGTGTGCTGTAGGGGTCTCAGTGCTCCTGGCCATTCTCCTCTCCTATTTTATAGCAATGCATCTATTTGGCCTCAACTGGCACTTACAGCAGACGGAAAATGACACATTCGAGAATGGAAAAGTGAATTCTGACACCGTGCCAACAAACACTGTATCGTTACCTTCTGGCGACAATGGAAAATTAGGTGGATTTACACATGAAAATAACACCATAGATTCCGGAGAACTTGATATTGGCCGGAGAGCAATTCAAGAGGTTCCCCCCGGGATCTTCTGGAGATCGCAGCTCTTTATTGATCAGCCACAGTTTCTTAAGTTCAACATCTCTCTTCAGAAGGATGCATTGATCGGAGTGTACGGCCGGAAGGGCTTACCGCCTTCCCATACTCAGTACGACTTTGTGGAACTACTGGATGGTAGCAGGTTAATTGCGAGAGAGCAGCGGAACCTGGTGGAGTCCGAAAGAGCCGGGCGGCAGGCGAGATCTGTCAGCCTGCACGAAGCTGGCTTCATCCAGTACTTGGATTCTGGAATCTGGCATCTGGCTTTTTATAACGACGGGAAAAACCCAGAGCAGGTCTCCTTTAACACGATCGTTATAGAGTCTGTGGTGGAATGCCCCCGAAATTGCCATGGAAATGGAGAGTGTGTTTCTGGAACTTGCCATTGTTTCCCCGGGTTTCTAGGTCCGGATTGTTCAAGAGCAGCCTGTCCGGTGCTCTGTAGTGGCAACGGGCAATACTCCAAGGGCCGCTGCCTGTGCTTCAGTGGCTGGAAGGGCACCGAGTGTGACGTGCCGACGACCCAGTGCATTGACCCGCAGTGCGGGGGTCGTGGGATTTGCATCATGGGCTCTTGCGCTTGTAACTCGGGATACAAAGGAGAAAACTGTGAGGAAGCGGACTGTCTAGACCCTGGATGTTCTAATCACGGGGTGTGTATCCATGGGGAATGTCACTGCAATCCAGGCTGGGGTGGCAGCAACTGTGAAATACTGAAGACTATGTGTGCAGACCAGTGCTCAGGCCACGGGACTTACCTTCAAGAAAGCGGCTCCTGCACTTGCGACCCAAATTGGACTGGCCCCGACTGCTCAAATGAAATATGTTCAGTGGACTGCGGCTCACACGGCGTCTGCATGGGGGGCTCCTGTCGCTGTGAAGAAGGCTGGACCGGCCCGGCGTGTAATCAGAGAGCTTGCCACCCTCGCTGTGCTGAGCACGGGACGTGCAAGGACGGCAAGTGCGAGTGCAGCCAAGGATGGAACGGAGAGCACTGCACAATTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATCAGAGAGCTTGCCACCC
60.03
TACTGAACAGTGGCGTCGTC
60.04
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATCAGAGAGCTTGCCACCC
60.03
ATGCCATTGTGTATCCCGGG
60.18
174
PCR template sequence:
AATCAGAGAGCTTGCCACCCTCGCTGTGCTGAGCACGGGACGTGCAAGGACGGCAAGTGCGAGTGCAGCCAAGGATGGAACGGAGAGCACTGCACAATTGGCATTTCCTATTCAAAACAGGGACAGGGACGACGCCACTGTTCAGTACGGCAACCCCGGGATACACAATGGCATCTGGCTCTGTTTATTCTCCGCCTACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-335-5p(1), mmu-miR-33-5p(1), mmu-miR-326-3p(1), mmu-miR-136-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-183-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CACTGCACAATTGGCATTTCCTATTC
siRNA sets
TAGGAAATGCCAATTGTGC,ATAGGAAATGCCAATTGTG,GAAATGCCAATTGTGCAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTENM3_1472_ORF_1
0.6501
0.093712067
0.999606771
1602
ORF sequence:
ATGGCATCTGGCTCTGTTTATTCTCCGCCTACCCGGCCACTTCCTAGAAACACCCTATCAAGAAGTGCTTTTAAATTCAAGAAGTCTTCAAAGTACTGCAGCTGGAGGTGCACCGCACTGTGTGCTGTAGGGGTCTCAGTGCTCCTGGCCATTCTCCTCTCCTATTTTATAGCAATGCATCTATTTGGCCTCAACTGGCACTTACAGCAGACGGAAAATGACACATTCGAGAATGGAAAAGTGAATTCTGACACCGTGCCAACAAACACTGTATCGTTACCTTCTGGCGACAATGGAAAATTAGGTGGATTTACACATGAAAATAACACCATAGATTCCGGAGAACTTGATATTGGCCGGAGAGCAATTCAAGAGGTTCCCCCCGGGATCTTCTGGAGATCGCAGCTCTTTATTGATCAGCCACAGTTTCTTAAGTTCAACATCTCTCTTCAGAAGGATGCATTGATCGGAGTGTACGGCCGGAAGGGCTTACCGCCTTCCCATACTCAGTACGACTTTGTGGAACTACTGGATGGTAGCAGGTTAATTGCGAGAGAGCAGCGGAACCTGGTGGAGTCCGAAAGAGCCGGGCGGCAGGCGAGATCTGTCAGCCTGCACGAAGCTGGCTTCATCCAGTACTTGGATTCTGGAATCTGGCATCTGGCTTTTTATAACGACGGGAAAAACCCAGAGCAGGTCTCCTTTAACACGATCGTTATAGAGTCTGTGGTGGAATGCCCCCGAAATTGCCATGGAAATGGAGAGTGTGTTTCTGGAACTTGCCATTGTTTCCCCGGGTTTCTAGGTCCGGATTGTTCAAGAGCAGCCTGTCCGGTGCTCTGTAGTGGCAACGGGCAATACTCCAAGGGCCGCTGCCTGTGCTTCAGTGGCTGGAAGGGCACCGAGTGTGACGTGCCGACGACCCAGTGCATTGACCCGCAGTGCGGGGGTCGTGGGATTTGCATCATGGGCTCTTGCGCTTGTAACTCGGGATACAAAGGAGAAAACTGTGAGGAAGCGGACTGTCTAGACCCTGGATGTTCTAATCACGGGGTGTGTATCCATGGGGAATGTCACTGCAATCCAGGCTGGGGTGGCAGCAACTGTGAAATACTGAAGACTATGTGTGCAGACCAGTGCTCAGGCCACGGGACTTACCTTCAAGAAAGCGGCTCCTGCACTTGCGACCCAAATTGGACTGGCCCCGACTGCTCAAATGAAATATGTTCAGTGGACTGCGGCTCACACGGCGTCTGCATGGGGGGCTCCTGTCGCTGTGAAGAAGGCTGGACCGGCCCGGCGTGTAATCAGAGAGCTTGCCACCCTCGCTGTGCTGAGCACGGGACGTGCAAGGACGGCAAGTGCGAGTGCAGCCAAGGATGGAACGGAGAGCACTGCACAATTGGCATTTCCTATTCAAAACAGGGACAGGGACGACGCCACTGTTCAGTACGGCAACCCCGGGATACACAATGGCATCTGGCTCTGTTTATTCTCCGCCTACCCGGCCACTTCCTAGAAACACCCTATCAAGAAGTGCTTTTAAATTCAAGAAGTCTTCAAAGTACTGCAGCTGGAGGTGCACCGCACTGTGTGCTGTAG
Peptide sequence:
MASGSVYSPPTRPLPRNTLSRSAFKFKKSSKYCSWRCTALCAVGVSVLLAILLSYFIAMHLFGLNWHLQQTENDTFENGKVNSDTVPTNTVSLPSGDNGKLGGFTHENNTIDSGELDIGRRAIQEVPPGIFWRSQLFIDQPQFLKFNISLQKDALIGVYGRKGLPPSHTQYDFVELLDGSRLIAREQRNLVESERAGRQARSVSLHEAGFIQYLDSGIWHLAFYNDGKNPEQVSFNTIVIESVVECPRNCHGNGECVSGTCHCFPGFLGPDCSRAACPVLCSGNGQYSKGRCLCFSGWKGTECDVPTTQCIDPQCGGRGICIMGSCACNSGYKGENCEEADCLDPGCSNHGVCIHGECHCNPGWGGSNCEILKTMCADQCSGHGTYLQESGSCTCDPNWTGPDCSNEICSVDCGSHGVCMGGSCRCEEGWTGPACNQRACHPRCAEHGTCKDGKCECSQGWNGEHCTIGISYSKQGQGRRHCSVRQPRDTQWHLALFILRLPGHFLETPYQEVLLNSRSLQSTAAGGAPHCVL
IRESfinder result
IRESfinder score
0.495115901
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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