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mmu_circTenm2_1263
Basic information of circular RNA
PanCircBase ID:
mmu_circTenm2_1263
mm39_Chr. Position ID:
chr11|35937593|35942849|-
Gene name:
Tenm2
Transcript:
ENSMUST00000102801.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
25,24,23
Exon/intron offsets:
0,2325,5023
Genomic length:
5256
Exon/intron sizes in nt:
87,51,55,233
Flanking exon/introns:
chr11:35932511-35937593|chr11:35942849-35945752
Splice length:
1263
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CAACAGCCCAGGACACAAGTATTACTTGGCTGTGGACCCCGTGACCGGCTCACTCTACGTCTCTGACACCAACAGTCGCCGAATCTACCGAGTCAAGTCTCTGAGCGGAGCCAAAGACCTGGCTGGAAATTCGGAAGTTGTGGCAGGGACTGGCGAACAATGTCTACCCTTTGATGAAGCCCGCTGTGGGGATGGAGGGAAGGCTGTGGACGCCACCCTCATGAGCCCCAGAGGTATTGCAGTAGACAAGAATGGGCTTATGTACTTTGTTGATGCCACCATGATCCGGAAGGTGGACCAAAACGGAATCATCTCCACCCTGCTGGGCTCCAATGACCTCACAGCTGTCCGACCACTGAGCTGTGACTCGAGCATGGACGTGGCCCAGGTCCGTCTAGAATGGCCGACAGACCTCGCCGTCAACCCCATGGACAACTCCCTGTACGTTCTGGAGAACAACGTCATCCTGCGGATCACGGAGAACCACCAGGTCAGCATCATCGCGGGACGGCCTATGCACTGCCAGGTTCCCGGCATCGACTACTCGCTCAGCAAACTCGCCATCCATTCTGCGCTGGAATCAGCCAGCGCCATTGCTATTTCTCACACTGGGGTGCTCTACATCACTGAGACGGACGAGAAGAAGATCAACCGCCTACGCCAAGTCACCACCAATGGAGAGATCTGCCTCTTAGCCGGGGCGGCCTCAGACTGTGACTGCAAAAACGATGTCAACTGCATCTGCTACTCGGGAGATGACGCTTACGCCACGGACGCCATCCTAAACTCGCCGTCCTCCTTAGCCGTGGCTCCAGATGGCACCATCTACATTGCAGACCTTGGGAATATCCGGATCAGGGCGGTCAGCAAAAATAAACCCGTTCTTAACGCATTCAACCAGTATGAGGCTGCATCTCCGGGAGAACAGGAATTGTACGTGTTCAACGCTGATGGTATCCATCAGTACACTGTGAGTCTGGTGACTGGGGAGTACTTGTACAATTTCACATACAGCGCTGACAATGACGTCACCGAGTTGATTGACAACAACGGGAATTCCCTAAAGATCCGCCGGGACAGCAGTGGCATGCCCCGCCACCTGCTCATGCCTGATAATCAGATTATCACCCTTACCGTGGGCACCAATGGAGGCCTCAAAGCCGTGTCCACTCAGAACCTGGAGCTGGGCCTCATGACTTATGATGGGAACACTGGACTCCTAGCCACCAAGAGTGATGAAACTGGATGGACAACTTTTTATGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACTCAGAACCTGGAGCTGG
60.04
GCGACTGTTGGTGTCAGAGA
59.97
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCACTCAGAACCTGGAGCTG
60.04
GCGACTGTTGGTGTCAGAGA
59.97
176
PCR template sequence:
TGTCCACTCAGAACCTGGAGCTGGGCCTCATGACTTATGATGGGAACACTGGACTCCTAGCCACCAAGAGTGATGAAACTGGATGGACAACTTTTTATGACAACAGCCCAGGACACAAGTATTACTTGGCTGTGGACCCCGTGACCGGCTCACTCTACGTCTCTGACACCAACAGTCGCCGAATCTACCGAGTCAAGTCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(2), mmu-miR-129-5p(2), mmu-miR-199a-5p(1), mmu-miR-375-3p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-128-3p(1), mmu-miR-382-5p(1), mmu-miR-34b-5p(1), mmu-miR-297a-5p(1), mmu-miR-673-5p(1), mmu-miR-539-5p(1), mmu-miR-3065-5p(1), mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAACTTTTTATGACAACAGCCCAGGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTENM2_1263_ORF_1
1.3095
0.485871826
0.999999855
2304
ORF sequence:
ATGAGCCCCAGAGGTATTGCAGTAGACAAGAATGGGCTTATGTACTTTGTTGATGCCACCATGATCCGGAAGGTGGACCAAAACGGAATCATCTCCACCCTGCTGGGCTCCAATGACCTCACAGCTGTCCGACCACTGAGCTGTGACTCGAGCATGGACGTGGCCCAGGTCCGTCTAGAATGGCCGACAGACCTCGCCGTCAACCCCATGGACAACTCCCTGTACGTTCTGGAGAACAACGTCATCCTGCGGATCACGGAGAACCACCAGGTCAGCATCATCGCGGGACGGCCTATGCACTGCCAGGTTCCCGGCATCGACTACTCGCTCAGCAAACTCGCCATCCATTCTGCGCTGGAATCAGCCAGCGCCATTGCTATTTCTCACACTGGGGTGCTCTACATCACTGAGACGGACGAGAAGAAGATCAACCGCCTACGCCAAGTCACCACCAATGGAGAGATCTGCCTCTTAGCCGGGGCGGCCTCAGACTGTGACTGCAAAAACGATGTCAACTGCATCTGCTACTCGGGAGATGACGCTTACGCCACGGACGCCATCCTAAACTCGCCGTCCTCCTTAGCCGTGGCTCCAGATGGCACCATCTACATTGCAGACCTTGGGAATATCCGGATCAGGGCGGTCAGCAAAAATAAACCCGTTCTTAACGCATTCAACCAGTATGAGGCTGCATCTCCGGGAGAACAGGAATTGTACGTGTTCAACGCTGATGGTATCCATCAGTACACTGTGAGTCTGGTGACTGGGGAGTACTTGTACAATTTCACATACAGCGCTGACAATGACGTCACCGAGTTGATTGACAACAACGGGAATTCCCTAAAGATCCGCCGGGACAGCAGTGGCATGCCCCGCCACCTGCTCATGCCTGATAATCAGATTATCACCCTTACCGTGGGCACCAATGGAGGCCTCAAAGCCGTGTCCACTCAGAACCTGGAGCTGGGCCTCATGACTTATGATGGGAACACTGGACTCCTAGCCACCAAGAGTGATGAAACTGGATGGACAACTTTTTATGACAACAGCCCAGGACACAAGTATTACTTGGCTGTGGACCCCGTGACCGGCTCACTCTACGTCTCTGACACCAACAGTCGCCGAATCTACCGAGTCAAGTCTCTGAGCGGAGCCAAAGACCTGGCTGGAAATTCGGAAGTTGTGGCAGGGACTGGCGAACAATGTCTACCCTTTGATGAAGCCCGCTGTGGGGATGGAGGGAAGGCTGTGGACGCCACCCTCATGAGCCCCAGAGGTATTGCAGTAGACAAGAATGGGCTTATGTACTTTGTTGATGCCACCATGATCCGGAAGGTGGACCAAAACGGAATCATCTCCACCCTGCTGGGCTCCAATGACCTCACAGCTGTCCGACCACTGAGCTGTGACTCGAGCATGGACGTGGCCCAGGTCCGTCTAGAATGGCCGACAGACCTCGCCGTCAACCCCATGGACAACTCCCTGTACGTTCTGGAGAACAACGTCATCCTGCGGATCACGGAGAACCACCAGGTCAGCATCATCGCGGGACGGCCTATGCACTGCCAGGTTCCCGGCATCGACTACTCGCTCAGCAAACTCGCCATCCATTCTGCGCTGGAATCAGCCAGCGCCATTGCTATTTCTCACACTGGGGTGCTCTACATCACTGAGACGGACGAGAAGAAGATCAACCGCCTACGCCAAGTCACCACCAATGGAGAGATCTGCCTCTTAGCCGGGGCGGCCTCAGACTGTGACTGCAAAAACGATGTCAACTGCATCTGCTACTCGGGAGATGACGCTTACGCCACGGACGCCATCCTAAACTCGCCGTCCTCCTTAGCCGTGGCTCCAGATGGCACCATCTACATTGCAGACCTTGGGAATATCCGGATCAGGGCGGTCAGCAAAAATAAACCCGTTCTTAACGCATTCAACCAGTATGAGGCTGCATCTCCGGGAGAACAGGAATTGTACGTGTTCAACGCTGATGGTATCCATCAGTACACTGTGAGTCTGGTGACTGGGGAGTACTTGTACAATTTCACATACAGCGCTGACAATGACGTCACCGAGTTGATTGACAACAACGGGAATTCCCTAAAGATCCGCCGGGACAGCAGTGGCATGCCCCGCCACCTGCTCATGCCTGATAATCAGATTATCACCCTTACCGTGGGCACCAATGGAGGCCTCAAAGCCGTGTCCACTCAGAACCTGGAGCTGGGCCTCATGACTTATGATGGGAACACTGGACTCCTAGCCACCAAGAGTGATGAAACTGGATGGACAACTTTTTAT
Peptide sequence:
MSPRGIAVDKNGLMYFVDATMIRKVDQNGIISTLLGSNDLTAVRPLSCDSSMDVAQVRLEWPTDLAVNPMDNSLYVLENNVILRITENHQVSIIAGRPMHCQVPGIDYSLSKLAIHSALESASAIAISHTGVLYITETDEKKINRLRQVTTNGEICLLAGAASDCDCKNDVNCICYSGDDAYATDAILNSPSSLAVAPDGTIYIADLGNIRIRAVSKNKPVLNAFNQYEAASPGEQELYVFNADGIHQYTVSLVTGEYLYNFTYSADNDVTELIDNNGNSLKIRRDSSGMPRHLLMPDNQIITLTVGTNGGLKAVSTQNLELGLMTYDGNTGLLATKSDETGWTTFYDNSPGHKYYLAVDPVTGSLYVSDTNSRRIYRVKSLSGAKDLAGNSEVVAGTGEQCLPFDEARCGDGGKAVDATLMSPRGIAVDKNGLMYFVDATMIRKVDQNGIISTLLGSNDLTAVRPLSCDSSMDVAQVRLEWPTDLAVNPMDNSLYVLENNVILRITENHQVSIIAGRPMHCQVPGIDYSLSKLAIHSALESASAIAISHTGVLYITETDEKKINRLRQVTTNGEICLLAGAASDCDCKNDVNCICYSGDDAYATDAILNSPSSLAVAPDGTIYIADLGNIRIRAVSKNKPVLNAFNQYEAASPGEQELYVFNADGIHQYTVSLVTGEYLYNFTYSADNDVTELIDNNGNSLKIRRDSSGMPRHLLMPDNQIITLTVGTNGGLKAVSTQNLELGLMTYDGNTGLLATKSDETGWTTFY
IRESfinder result
IRESfinder score
0.26015343
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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