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mmu_circPtpn12_1197
Basic information of circular RNA
PanCircBase ID:
mmu_circPtpn12_1197
mm39_Chr. Position ID:
chr5|21197706|21206355|-
Gene name:
Ptpn12
Transcript:
ENSMUST00000030556.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
15,14,13,12
Exon/intron offsets:
0,521,5074,8563
Genomic length:
8649
Exon/intron sizes in nt:
68,69,974,86
Flanking exon/introns:
chr5:21196422-21197706|chr5:21206355-21207420
Splice length:
1197
Other database IDs:
circAtlas: mmu-Ptpn12_0048
circBase: hsa_circ_0134696, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_370150
Human Ortholog IDs:
Mature spliced Sequence:
AATGAAATTACCACTGGAACTATGGTCAGTTCCATTGATAGCGAGAAGCAAGACTCTCCTCCGCCAAAGCCACCGCGGACTCGAAGTTGCCTTGTAGAAGGGGATGCCAAGGAAGAAATACTACAGCCACCAGAACCTCACCCGGTGCCACCCATCCTGACGCCATCACCTCCTTCAGCCTTCCCAACCGTTACCACTGTGTGGCAGGACAGTGACAGGTACCACCCAAAGCCAGTGCTGCACATGGCCTCACCAGAGCAACACCCAGCCGACCTCAACAGAAGCTATGATAAATCAGCGGACCCAATGGGGAAAAGTGAATCAGCTATTGAGCACATAGATAAGAAGTTAGAGCGCAATTTAAGTTTTGAGATTAAGAAAGTCCCTCTCCAAGAAGGGCCCAAAAGTTTTGATGGGAACACACTCTTGAATAGGGGACATGCGATTAAAATTAAATCTGCTTCATCTTCTGTAGTTGACAGAACCTCTAAACCACAGGAGTTAAGTGCAGGTGCCCTAAAGGTTGATGATGTATCTCAGAATTCTTGCGCGGACTGTAGTGCGGCTCATTCACACAGAGCTGCTGAGTCGTCAGAGGAGTCCCAGAGCAACTCACACACACCTCCACGGCCAGACTGCTTGCCTCTCGATAAGAAAGGACACGTAACGTGGTCACTTCATGGACCTGAAAATGCCACACCTGTACCCGACTCACCTGACGGCAAATCCCCAGATAATCATTCTCAGACTCTGAAAACCGTGAGTTCCACACCCAACTCCACCGCAGAAGAGGAAGCCCACGATCTTACAGAGCACCACAACAGCTCCCCTCTGTTGAAAGCTCCCCTCAGCTTTACCAACCCTCTTCACTCTGACGACTCGGACTCAGACGGAGGGAGCTCTGATGGTGCTGTGACCAGGAACAAAACTAGCATTTCAACAGCAAGTGCCACAGTGTCTCCTGCCAGTAGTGCTGAGAGTGCTTGCACTAGGAGAGTATTGCCGATGTCCATTGCCAGACAGGAAGTAGCAGGCACGCCGCATTCAGGTGCTGAGAAAGATGCTGATGTTAGTGAGGAGTCGCCTCCTCCTTTACCTGAACGAACTCCTGAGTCTTTTGTATTAGCAGATATGCCTGTAAGACCTGAGTGGCATGAACTTCCAAATCAGGAGTGGTCTGAACAAAGGGAATCTGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTGTAAGACCTGAGTGGC
60.39
AACTTCGAGTCCGCGGTG
60.05
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTGTAAGACCTGAGTGGC
60.39
CAACTTCGAGTCCGCGGT
60.05
153
PCR template sequence:
TGAACGAACTCCTGAGTCTTTTGTATTAGCAGATATGCCTGTAAGACCTGAGTGGCATGAACTTCCAAATCAGGAGTGGTCTGAACAAAGGGAATCTGAAAATGAAATTACCACTGGAACTATGGTCAGTTCCATTGATAGCGAGAAGCAAGACTCTCCTCCGCCAAAGCCACCGCGGACTCGAAGTTGCCTTGTAGAAG
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-211-5p(1), mmu-miR-204-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-298-5p(1), mmu-miR-320-3p(1), mmu-miR-324-5p(1), mmu-miR-326-3p(1), mmu-miR-139-5p(1), mmu-miR-128-3p(1), mmu-miR-136-5p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-1199-5p(1), mmu-miR-574-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGGGAATCTGAAAATGAAATTACCA
siRNA sets
ATTTCATTTTCAGATTCCC, TAATTTCATTTTCAGATTC, TTTCATTTTCAGATTCCCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPTPN12_1197_ORF_1
1.1287
0.158171688
0.99999953
2373
ORF sequence:
ATGGTCAGTTCCATTGATAGCGAGAAGCAAGACTCTCCTCCGCCAAAGCCACCGCGGACTCGAAGTTGCCTTGTAGAAGGGGATGCCAAGGAAGAAATACTACAGCCACCAGAACCTCACCCGGTGCCACCCATCCTGACGCCATCACCTCCTTCAGCCTTCCCAACCGTTACCACTGTGTGGCAGGACAGTGACAGGTACCACCCAAAGCCAGTGCTGCACATGGCCTCACCAGAGCAACACCCAGCCGACCTCAACAGAAGCTATGATAAATCAGCGGACCCAATGGGGAAAAGTGAATCAGCTATTGAGCACATAGATAAGAAGTTAGAGCGCAATTTAAGTTTTGAGATTAAGAAAGTCCCTCTCCAAGAAGGGCCCAAAAGTTTTGATGGGAACACACTCTTGAATAGGGGACATGCGATTAAAATTAAATCTGCTTCATCTTCTGTAGTTGACAGAACCTCTAAACCACAGGAGTTAAGTGCAGGTGCCCTAAAGGTTGATGATGTATCTCAGAATTCTTGCGCGGACTGTAGTGCGGCTCATTCACACAGAGCTGCTGAGTCGTCAGAGGAGTCCCAGAGCAACTCACACACACCTCCACGGCCAGACTGCTTGCCTCTCGATAAGAAAGGACACGTAACGTGGTCACTTCATGGACCTGAAAATGCCACACCTGTACCCGACTCACCTGACGGCAAATCCCCAGATAATCATTCTCAGACTCTGAAAACCGTGAGTTCCACACCCAACTCCACCGCAGAAGAGGAAGCCCACGATCTTACAGAGCACCACAACAGCTCCCCTCTGTTGAAAGCTCCCCTCAGCTTTACCAACCCTCTTCACTCTGACGACTCGGACTCAGACGGAGGGAGCTCTGATGGTGCTGTGACCAGGAACAAAACTAGCATTTCAACAGCAAGTGCCACAGTGTCTCCTGCCAGTAGTGCTGAGAGTGCTTGCACTAGGAGAGTATTGCCGATGTCCATTGCCAGACAGGAAGTAGCAGGCACGCCGCATTCAGGTGCTGAGAAAGATGCTGATGTTAGTGAGGAGTCGCCTCCTCCTTTACCTGAACGAACTCCTGAGTCTTTTGTATTAGCAGATATGCCTGTAAGACCTGAGTGGCATGAACTTCCAAATCAGGAGTGGTCTGAACAAAGGGAATCTGAAAATGAAATTACCACTGGAACTATGGTCAGTTCCATTGATAGCGAGAAGCAAGACTCTCCTCCGCCAAAGCCACCGCGGACTCGAAGTTGCCTTGTAGAAGGGGATGCCAAGGAAGAAATACTACAGCCACCAGAACCTCACCCGGTGCCACCCATCCTGACGCCATCACCTCCTTCAGCCTTCCCAACCGTTACCACTGTGTGGCAGGACAGTGACAGGTACCACCCAAAGCCAGTGCTGCACATGGCCTCACCAGAGCAACACCCAGCCGACCTCAACAGAAGCTATGATAAATCAGCGGACCCAATGGGGAAAAGTGAATCAGCTATTGAGCACATAGATAAGAAGTTAGAGCGCAATTTAAGTTTTGAGATTAAGAAAGTCCCTCTCCAAGAAGGGCCCAAAAGTTTTGATGGGAACACACTCTTGAATAGGGGACATGCGATTAAAATTAAATCTGCTTCATCTTCTGTAGTTGACAGAACCTCTAAACCACAGGAGTTAAGTGCAGGTGCCCTAAAGGTTGATGATGTATCTCAGAATTCTTGCGCGGACTGTAGTGCGGCTCATTCACACAGAGCTGCTGAGTCGTCAGAGGAGTCCCAGAGCAACTCACACACACCTCCACGGCCAGACTGCTTGCCTCTCGATAAGAAAGGACACGTAACGTGGTCACTTCATGGACCTGAAAATGCCACACCTGTACCCGACTCACCTGACGGCAAATCCCCAGATAATCATTCTCAGACTCTGAAAACCGTGAGTTCCACACCCAACTCCACCGCAGAAGAGGAAGCCCACGATCTTACAGAGCACCACAACAGCTCCCCTCTGTTGAAAGCTCCCCTCAGCTTTACCAACCCTCTTCACTCTGACGACTCGGACTCAGACGGAGGGAGCTCTGATGGTGCTGTGACCAGGAACAAAACTAGCATTTCAACAGCAAGTGCCACAGTGTCTCCTGCCAGTAGTGCTGAGAGTGCTTGCACTAGGAGAGTATTGCCGATGTCCATTGCCAGACAGGAAGTAGCAGGCACGCCGCATTCAGGTGCTGAGAAAGATGCTGATGTTAGTGAGGAGTCGCCTCCTCCTTTACCTGAACGAACTCCTGAGTCTTTTGTATTAGCAGATATGCCTGTAAGACCTGAGTGGCATGAACTTCCAAATCAGGAGTGGTCTGAACAAAGGGAATCTGAA
Peptide sequence:
MVSSIDSEKQDSPPPKPPRTRSCLVEGDAKEEILQPPEPHPVPPILTPSPPSAFPTVTTVWQDSDRYHPKPVLHMASPEQHPADLNRSYDKSADPMGKSESAIEHIDKKLERNLSFEIKKVPLQEGPKSFDGNTLLNRGHAIKIKSASSSVVDRTSKPQELSAGALKVDDVSQNSCADCSAAHSHRAAESSEESQSNSHTPPRPDCLPLDKKGHVTWSLHGPENATPVPDSPDGKSPDNHSQTLKTVSSTPNSTAEEEAHDLTEHHNSSPLLKAPLSFTNPLHSDDSDSDGGSSDGAVTRNKTSISTASATVSPASSAESACTRRVLPMSIARQEVAGTPHSGAEKDADVSEESPPPLPERTPESFVLADMPVRPEWHELPNQEWSEQRESENEITTGTMVSSIDSEKQDSPPPKPPRTRSCLVEGDAKEEILQPPEPHPVPPILTPSPPSAFPTVTTVWQDSDRYHPKPVLHMASPEQHPADLNRSYDKSADPMGKSESAIEHIDKKLERNLSFEIKKVPLQEGPKSFDGNTLLNRGHAIKIKSASSSVVDRTSKPQELSAGALKVDDVSQNSCADCSAAHSHRAAESSEESQSNSHTPPRPDCLPLDKKGHVTWSLHGPENATPVPDSPDGKSPDNHSQTLKTVSSTPNSTAEEEAHDLTEHHNSSPLLKAPLSFTNPLHSDDSDSDGGSSDGAVTRNKTSISTASATVSPASSAESACTRRVLPMSIARQEVAGTPHSGAEKDADVSEESPPPLPERTPESFVLADMPVRPEWHELPNQEWSEQRESE
IRESfinder result
IRESfinder score
0.50957714
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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