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mmu_circTpr_1310
Basic information of circular RNA
PanCircBase ID:
mmu_circTpr_1310
mm39_Chr. Position ID:
chr1|150308161|150315949|+
Gene name:
Tpr
Transcript:
ENSMUST00000124973.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
35,36,37,38,39,40,41,42
Exon/intron offsets:
0,408,1267,3232,4307,4992,6671,7656
Genomic length:
7788
Exon/intron sizes in nt:
2,06,62,20,92,73,14,98,00,00,000
Flanking exon/introns:
chr1:150307099-150308161|chr1:150315949-150316189
Splice length:
1310
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGTGAAAGATCAGCTGACTAAAGAAATTGAAGAACTTAAACAAAGGAACGGAGCTCTAGATCAGCAGAAAGATGAGCTTGATGTCCGAATGACTGCTCTTAAGTCCCAGTATGAAGGTCGGATTAGTCGCTTAGAGAGAGAGCTCAGAGAGCATCAAGAGCGACACCTTGAGCAGAGGGATGAGCCTCAAGAACCCACTAATAAGGCTCCAGAACAGCAAAGACAAATCACACTGAAAACCACTCCAGCTTCTGGTGAAAGAGGAATTGCCAGCACATCAGACCCACCAACAGCCAATATCAAGCCAACTCCTGTTGTTTCTACTCCAAGTAAAGTGACAGCTGCAGCTATGGCTGGGAATAAGTCGACACCCAGGGCAAGTATCCGCCCAATGGTTACACCTGCAACGGTCACAAATCCGACCACTACCCCAACAGCAACCGTAATGCCTACTACACAGGTGGAGTCACAGGAAGCTATGCAGTCAGAAGGGCCTGTGGAACATGTTCCAGTATTTGGAAACGCAAGTGGATCTGTTCGTTCTACTAGTCCTAATGTTCAGCCCTCCATTTCTCAGCCCATCCTAACTGTACAGCAGCAAACACAAGCTACAGCTTTTGTACAACCCACTCAACAGAGCCACCCGCAGATTGAGCCTACAAATCAAGAATTGTCCCCAAACATAGTTGAGGTAGTACAAAGTTCCCCAGTGGAGCGTCCATCTACTTCCACAGCAGTATTTGGCACTGTTTCAGCTACCCCAAGTTCCTCCTTGCCAAAGCGCACTCGGGAGGAGGAAGAGGACAGCACCATGGAAGCAGGAGACCAAGTCTCTGAGGACACAGTGGAAATGCCTCTCCCGAAGAAGCTGAAGATGGTCACACCCGTTGGAACCGAGGAAGAAGTTATGGCAGAAGAAAGTACTGATGGAGAGGCAGAAACTCAAGCCTATAATCAGGACTCTCAAGATTCCATTGGAGAAGGAGTTACCCAGGGAGATTATACACCAATGGAAGACAGTGAAGAAACATCACAATCTCTACAAATCGATCTTGGACCACTTCAGTCAGATCAACAGACTACTTCCTCTCAAGATGGTCAAGGCAAAGGAGATGATGTAATTGTAATTGACAGTGATGATGAAGATGATGATGAAGAAAATGATGGCGAACATGAAGATTATGAAGAAGACGAAGATGATGATGATGATGAAGAAGATGACACGGGGATGGGAGATGAGGGTGAAGATAGTAATGAAGGAACTGGTAGTGCAGATGGTAATGATGGATATGAAGCTGATGATGCTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGATGACACGGGGATGGG
60.18
GCTGATCTAGAGCTCCGTTCC
60
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGATGACACGGGGATGGG
60.18
TCTGCTGATCTAGAGCTCCGT
60.13
165
PCR template sequence:
TGAAGAAGATGACACGGGGATGGGAGATGAGGGTGAAGATAGTAATGAAGGAACTGGTAGTGCAGATGGTAATGATGGATATGAAGCTGATGATGCTGAGGTGTGAAAGATCAGCTGACTAAAGAAATTGAAGAACTTAAACAAAGGAACGGAGCTCTAGATCAGCAGAAAGATGAGCTTGATGTCCGAATGACTGCTCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-326-3p(1), mmu-miR-182-5p(1), mmu-miR-758-3p(1), mmu-miR-541-5p(1), mmu-miR-669d-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TGATGATGCTGAGGTGTGAAAGATCA
siRNA sets
TTTCACACCTCAGCATCAT, TGATCTTTCACACCTCAGC, TTCACACCTCAGCATCATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTPR_1310_ORF_1
1.1717
0.250609905
0.998834788
1227
ORF sequence:
ATGACTGCTCTTAAGTCCCAGTATGAAGGTCGGATTAGTCGCTTAGAGAGAGAGCTCAGAGAGCATCAAGAGCGACACCTTGAGCAGAGGGATGAGCCTCAAGAACCCACTAATAAGGCTCCAGAACAGCAAAGACAAATCACACTGAAAACCACTCCAGCTTCTGGTGAAAGAGGAATTGCCAGCACATCAGACCCACCAACAGCCAATATCAAGCCAACTCCTGTTGTTTCTACTCCAAGTAAAGTGACAGCTGCAGCTATGGCTGGGAATAAGTCGACACCCAGGGCAAGTATCCGCCCAATGGTTACACCTGCAACGGTCACAAATCCGACCACTACCCCAACAGCAACCGTAATGCCTACTACACAGGTGGAGTCACAGGAAGCTATGCAGTCAGAAGGGCCTGTGGAACATGTTCCAGTATTTGGAAACGCAAGTGGATCTGTTCGTTCTACTAGTCCTAATGTTCAGCCCTCCATTTCTCAGCCCATCCTAACTGTACAGCAGCAAACACAAGCTACAGCTTTTGTACAACCCACTCAACAGAGCCACCCGCAGATTGAGCCTACAAATCAAGAATTGTCCCCAAACATAGTTGAGGTAGTACAAAGTTCCCCAGTGGAGCGTCCATCTACTTCCACAGCAGTATTTGGCACTGTTTCAGCTACCCCAAGTTCCTCCTTGCCAAAGCGCACTCGGGAGGAGGAAGAGGACAGCACCATGGAAGCAGGAGACCAAGTCTCTGAGGACACAGTGGAAATGCCTCTCCCGAAGAAGCTGAAGATGGTCACACCCGTTGGAACCGAGGAAGAAGTTATGGCAGAAGAAAGTACTGATGGAGAGGCAGAAACTCAAGCCTATAATCAGGACTCTCAAGATTCCATTGGAGAAGGAGTTACCCAGGGAGATTATACACCAATGGAAGACAGTGAAGAAACATCACAATCTCTACAAATCGATCTTGGACCACTTCAGTCAGATCAACAGACTACTTCCTCTCAAGATGGTCAAGGCAAAGGAGATGATGTAATTGTAATTGACAGTGATGATGAAGATGATGATGAAGAAAATGATGGCGAACATGAAGATTATGAAGAAGACGAAGATGATGATGATGATGAAGAAGATGACACGGGGATGGGAGATGAGGGTGAAGATAGTAATGAAGGAACTGGTAGTGCAGATGGTAATGATGGATATGAAGCTGATGATGCTGAGGTGTGA
Peptide sequence:
MTALKSQYEGRISRLERELREHQERHLEQRDEPQEPTNKAPEQQRQITLKTTPASGERGIASTSDPPTANIKPTPVVSTPSKVTAAAMAGNKSTPRASIRPMVTPATVTNPTTTPTATVMPTTQVESQEAMQSEGPVEHVPVFGNASGSVRSTSPNVQPSISQPILTVQQQTQATAFVQPTQQSHPQIEPTNQELSPNIVEVVQSSPVERPSTSTAVFGTVSATPSSSLPKRTREEEEDSTMEAGDQVSEDTVEMPLPKKLKMVTPVGTEEEVMAEESTDGEAETQAYNQDSQDSIGEGVTQGDYTPMEDSEETSQSLQIDLGPLQSDQQTTSSQDGQGKGDDVIVIDSDDEDDDEENDGEHEDYEEDEDDDDDEEDDTGMGDEGEDSNEGTGSADGNDGYEADDAEV
IRESfinder result
IRESfinder score
0.344764994
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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