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mmu_circPomt1_729
Basic information of circular RNA
PanCircBase ID:
mmu_circPomt1_729
mm39_Chr. Position ID:
chr2|32127371|32133724|+
Gene name:
Pomt1
Transcript:
ENSMUST00000036473.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
2,3,4,5,6,7,8
Exon/intron offsets:
0,3067,3305,4293,5533,6105,6259
Genomic length:
6353
Exon/intron sizes in nt:
152,107,51,147,112,66,94
Flanking exon/introns:
chr2:32126753-32127371|chr2:32133724-32134245
Splice length:
729
Other database IDs:
CIRCpedia: MMU_CIRCpedia_16453, circAtlas: mmu-Pomt1_0003
Human Ortholog IDs:
Mature spliced Sequence:
GGAGTCCTCCCGAGCTGGCTTTTCTGCAAAATGTTAAGATTTTTGAAACGGCCTCTAGTGGTGACTGTTGACATCAATTTGAACTTGGTAGCTCTGACTGGCCTGGGACTACTTACCCGACTATGGCAACTCTCCTACCCTCGGGCTGTGGTTTTCGATGAAGTATATTATGGGCAGTACATTTCCTTCTACATGAAGCGCATCTTCTTTCTGGATGACAGTGGGCCACCATTTGGCCACATGCTACTGGCCTTAGGAGGTTGGTTAGGGGGATTCGATGGTAACTTTCTGTGGAACCGAATTGGAGCAGAGTACAGTAGCAATGTGCCTATATGGTCCTTACGCCTGCTGCCAGCGCTTGCCGGGGCCCTGTCAGTGCCCATGGCCTACCAGATAGTGCTAGAGCTCCACTTTTCCCACGGTGCTGCCATTGGAGCCGCCCTGCTGATGCTCATTGAGAACGCCCTGATCACTCAGTCCAGGCTCATGCTGTTGGAGTCCATACTGATATTTTTTAACCTGTTGGCTGTGTTGTCCTATCTGAAGTTCTTCAACTCCCAGACACACAGCCCTTTCTCAGTGCACTGGTGGCTGTGGCTACTGCTGACCGGGGTCTCTTGTTCCTGTGCAGTTGGGATCAAATACATGGGGATTTTCACCTACCTGCTTGTGCTCGGCATTGCAGCTGTCCACGCGTGGAATCTGATCGGAGACCAGACCTTGTCAAAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCACCTACCTGCTTGTGCTC
59.68
AGTCACCACTAGAGGCCGTT
60.54
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCACCTACCTGCTTGTGCT
59.24
GTCACCACTAGAGGCCGTTT
59.68
140
PCR template sequence:
AGTTGGGATCAAATACATGGGGATTTTCACCTACCTGCTTGTGCTCGGCATTGCAGCTGTCCACGCGTGGAATCTGATCGGAGACCAGACCTTGTCAAATGGAGTCCTCCCGAGCTGGCTTTTCTGCAAAATGTTAAGATTTTTGAAACGGCCTCTAGTGGTGACTGTTGACATCAATTTGAACTTGGTAGCTCTGACTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-212-3p(1), mmu-miR-130b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GACCTTGTCAAATGGAGTCCTCCCGA
siRNA sets
AGGACTCCATTTGACAAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPOMT1_729_ORF_1
1.0496
0.167692195
0.999531373
1428
ORF sequence:
ATGTTAAGATTTTTGAAACGGCCTCTAGTGGTGACTGTTGACATCAATTTGAACTTGGTAGCTCTGACTGGCCTGGGACTACTTACCCGACTATGGCAACTCTCCTACCCTCGGGCTGTGGTTTTCGATGAAGTATATTATGGGCAGTACATTTCCTTCTACATGAAGCGCATCTTCTTTCTGGATGACAGTGGGCCACCATTTGGCCACATGCTACTGGCCTTAGGAGGTTGGTTAGGGGGATTCGATGGTAACTTTCTGTGGAACCGAATTGGAGCAGAGTACAGTAGCAATGTGCCTATATGGTCCTTACGCCTGCTGCCAGCGCTTGCCGGGGCCCTGTCAGTGCCCATGGCCTACCAGATAGTGCTAGAGCTCCACTTTTCCCACGGTGCTGCCATTGGAGCCGCCCTGCTGATGCTCATTGAGAACGCCCTGATCACTCAGTCCAGGCTCATGCTGTTGGAGTCCATACTGATATTTTTTAACCTGTTGGCTGTGTTGTCCTATCTGAAGTTCTTCAACTCCCAGACACACAGCCCTTTCTCAGTGCACTGGTGGCTGTGGCTACTGCTGACCGGGGTCTCTTGTTCCTGTGCAGTTGGGATCAAATACATGGGGATTTTCACCTACCTGCTTGTGCTCGGCATTGCAGCTGTCCACGCGTGGAATCTGATCGGAGACCAGACCTTGTCAAATGGAGTCCTCCCGAGCTGGCTTTTCTGCAAAATGTTAAGATTTTTGAAACGGCCTCTAGTGGTGACTGTTGACATCAATTTGAACTTGGTAGCTCTGACTGGCCTGGGACTACTTACCCGACTATGGCAACTCTCCTACCCTCGGGCTGTGGTTTTCGATGAAGTATATTATGGGCAGTACATTTCCTTCTACATGAAGCGCATCTTCTTTCTGGATGACAGTGGGCCACCATTTGGCCACATGCTACTGGCCTTAGGAGGTTGGTTAGGGGGATTCGATGGTAACTTTCTGTGGAACCGAATTGGAGCAGAGTACAGTAGCAATGTGCCTATATGGTCCTTACGCCTGCTGCCAGCGCTTGCCGGGGCCCTGTCAGTGCCCATGGCCTACCAGATAGTGCTAGAGCTCCACTTTTCCCACGGTGCTGCCATTGGAGCCGCCCTGCTGATGCTCATTGAGAACGCCCTGATCACTCAGTCCAGGCTCATGCTGTTGGAGTCCATACTGATATTTTTTAACCTGTTGGCTGTGTTGTCCTATCTGAAGTTCTTCAACTCCCAGACACACAGCCCTTTCTCAGTGCACTGGTGGCTGTGGCTACTGCTGACCGGGGTCTCTTGTTCCTGTGCAGTTGGGATCAAATACATGGGGATTTTCACCTACCTGCTTGTGCTCGGCATTGCAGCTGTCCACGCGTGGAATCTGATCGGAGACCAGACCTTGTCAAAT
Peptide sequence:
MLRFLKRPLVVTVDINLNLVALTGLGLLTRLWQLSYPRAVVFDEVYYGQYISFYMKRIFFLDDSGPPFGHMLLALGGWLGGFDGNFLWNRIGAEYSSNVPIWSLRLLPALAGALSVPMAYQIVLELHFSHGAAIGAALLMLIENALITQSRLMLLESILIFFNLLAVLSYLKFFNSQTHSPFSVHWWLWLLLTGVSCSCAVGIKYMGIFTYLLVLGIAAVHAWNLIGDQTLSNGVLPSWLFCKMLRFLKRPLVVTVDINLNLVALTGLGLLTRLWQLSYPRAVVFDEVYYGQYISFYMKRIFFLDDSGPPFGHMLLALGGWLGGFDGNFLWNRIGAEYSSNVPIWSLRLLPALAGALSVPMAYQIVLELHFSHGAAIGAALLMLIENALITQSRLMLLESILIFFNLLAVLSYLKFFNSQTHSPFSVHWWLWLLLTGVSCSCAVGIKYMGIFTYLLVLGIAAVHAWNLIGDQTLSN
IRESfinder result
IRESfinder score
0.608364821
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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