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mmu_circPrex2_4018
Basic information of circular RNA
PanCircBase ID:
mmu_circPrex2_4018
mm39_Chr. Position ID:
chr1|11136017|11278879|+
Gene name:
Prex2
Transcript:
ENSMUST00000027056.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
32
Exon/intron indexes:
3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34
Exon/intron offsets:
0,2217,14229,23923,32669,35270,41809,44488,46949,57327,58020,66544,70971,74162,74442,76855,84016,87749,90447,94302,96446,104059,104790,116061,118652,119336,120093,120843,127719,134041,138272,142718
Genomic length:
142862
Exon/intron sizes in nt:
12,31,05,10,21,62,13,40,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr1:11131621-11136017|chr1:11278879-11301905
Splice length:
4018
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATGTTATTCTCCAATATCGAGGAGATCCTCATCGTTCATAAGGAGTTCTTGAAAGTTGTAGAAGAATGCTTATATCCGGAACCCAGTGCTCAGCAGGAAGTGGGAGCCTGCTTCCTTCACTTTAAGGACAAGTTTCGTATCTATGATGAATATTGCAGCAACCATGAAAAGGCACAAAAATTGCTTCTTGAACTGAACAAAATAAGAACAATCCGGACATTTCTTCTGAACTGCATGCTGCTTGGAGGTCGGAAGAATACAGACGTTCCCCTGGAAGGATATTTAGTGACACCAATTCAGAGGATATGCAAGTACCCTCTTCTTTTGAAGGAATTACTGAAGCGGACTCCACGGAGACATAGTGACTACACAGCAGTGATGGAAGCACTCCAAGCCATGAAAGCCGTGTGTTCCAACATTAATGAGGCCAAGAGACAGATGGAGAAACTGGAAGTTTTAGAAGAGTGGCAGGCACACATTGAAGGCTGGGAGGGGTCCAACATTACTGACACCTGTACTGAGATGCTGATGTGTGGAGTCCTAATGAAAATTTCTTCCGGAAATATTCAAGAACGAGTGTTTTTTCTTTTTGATAATCTTTTAGTATACTGCAAAAGAAAACACAGACGGCTGAAGAATAGTAAGGCATCCACAGATGGGTATCGGTATGTCTTTCGAGGGCGGATCAATACTGAGGTGATGGAAGTGGAAAATGTGGATGACGGCACAGCTGATTTTCACAGCAGTGGGCATATTGTTGTGAATGGGTGGAAGATACACAACACAGCAAAAAATAAATGGTTTGTATGCATGGCTAAAAGCCCTGAAGAAAAGCATGAGTGGTTTGAAGCTATTTTGAAAGAAAGAGAACGTCGGAAAGGGTTAAAACTAGGAATGGAACAAGACACCTGGGTAATGATCTCTGAGCAGGGTGAGAAATTGTATAAAATGATGTGCAAACAGGGAAATCTGATCAAAGACAGAAAAAGAAAACTGACCACATTTCCTAAGTGCTTCCTGGGAAGTGAATTTGTCTCATGGCTATTGGAAATTGGAGAGATTCACAGGCCCGAAGAAGGTGTTCACTTAGGACAAGCGCTGTTAGAGAATGGGATCATCCACCATGTTACCGATAAGCACCAGTTCAAACCGGAGCAAATGCTATACCGATTCCGTTATGACGATGGTACATTTTACCCCAGGAGTGAGATGCAGGACGTGATTTCTAAGGGTGTAAGGCTCTACTGTCGTCTTCATAGTCTGTTTACCCCAGTGGTCAGAGATAAAGATTACCATTTAAGAACTTACAAATCTGTTGTCATGGCCAACAAATTGATAGACTGGTTAATTGCACAGGGTGATTGCCGTACCAGGGAAGAGGCAATGATATTTGCTGTTGGGCTCTGTGACAATGGATTTATGCATCACGTCCTAGAAAAAAGTGAATTCAAAGATGAGCCTCTACTTTTCCGCTTTTTTGCTGATGAGGAAATGGAAGGATCAAATATGAAGCATAGGCTTATGAAACATGACTTGAAGGTTGTGGAGAATGTCATAGCTAAGTCACTGTTGATTAAATCCAACGAAGGCAGCTATGGCTTTGGCCTAGAAGACAAAAACAAAGTTCCAATAATAAAATTAGTGGAAAAGGGGTCGAATGCCGAGATGGCTGGCATGGAAGTTGGGAAGAAGATATTTGCCATTAATGGTGACCTTGTTTTTCTGAGACCTTTTCCTGAAGTCGATTGCTTCCTGAAATCGTGCTTAAACAGCAGAAAGCCACTGAGAGTCCTCGTGAGCACAAAGCCAAGAGAGACCGTTAAGATTCCAGATTCTGCAGACGGGCTTGGTTTCCAGATCAGAGGCTTTGGACCTTCAGTTGTGCATGCGGTGGGAAGAGGTACTGTGGCTGCAGCAGCTGGCCTTCATCCAGGACAGTGTATTATCAAAGTGAATGGAATCAATGTCAGCAAAGAGACACATGCCAGTGTCATCGCACATGTCACAGCCTGCCGGAAATACAAACGGCCAATGAAGCAAGATTCCATACAGTGGGTCTACGACAGTCTTGAAAGTGCTCAGGAAGACATTCAGAAGTCCCACTCAAAGCCCCCTGGAGACGGGGCTGGAGATGCTTTTGAGTGCAAAGTAGAAGATGTCATTGACAAGTTCAACACCATGGCTATTATTGATGGCAAGAAGGAGCATGTGAGTCTGACGGTGGACAACGTCCACCTCGAGTATGGGGTTGTATATGAGTATGATAGCACGGCGGGCACAAAGTGCAATGTGGTGGAGAAGATGGTGGAGCCCAAAGGGTTCTTCAGCCTAACTGCCAAGATTCTGGAAGCCCTAGCAAAAAGTGACGAACATTTTGTCCAAAACTGCACCAGCCTTAATTCTCTGAATGAAGTGATCGCCACTGATCTTCAGAGTAAATTCACCAGCATGTGCAGTGAGAGAATCGAACATGTGTGTCACAGAATATCCAGCTATGGGAGGTTCTCTCGGGTGCTGAAGAACAGAGCCTGGCCCACCTTTAAGCAGGCCAAACCTAAGATCTCCCCACTGCACAGCAGTGATTTCTGCCCAACCAACTGCCACGTCAATGTGATGGAAGTTTCTTATCCGAAAACATCAACTTCCCTGGGGAGTGCCTTCGGTGTGCAGCTAGATAGCAGAAAACATAATTCTCACGATAAAGAAAATAAATCTGTCGAGCCAGGGAAACTGAGCCCCATGGTGTATATTCAGCACACAATCACAACCATGGCAGCGCCTTCGGGCCTGTCACTGGGACACAAGGATGGGCATGGCCTCCAGTATTTGCTGAAAGAAGAAGACTTAGAAACTCAAGATATCTATCACAAACTTCTGGGCAAGCTGCAGACTGCACTGAAGGAGGTAGAGATGAGCGTTTGTCAAATTGATGACCTTCTGTCTTCAATAACATATTCTCCTAAATTGGAACGTAAGACAACAGAGTGTGTGACACCAATGGACAGTGACAACGAGAAGGGAGAGAGAAATAGCAAACGTGTCTGTTTTAATGTAGCAGGGGATGAGCAAGAGGATTCAGGCCATGATACAGTCAGCAACAGAGACTCTTACAGTGACTGCAACAGCAACAGGAATTCCATTGCTTCCTTCACGAGTATCTGCAGCAGCCAGTGCAGTTCCTACTTCCACAGTGATGAGATGGACTCAGGTGATGAGCTTCCTATCAGTGTCCGGATATCTCATGATAAACAAGACAAGATCCACACTTGCCTGGAACAGCTCTTCAGCCAGATTGATTCAATAATCAACCTCTTGAAAGGACAAGCTGTTATAAGAGCCTTTGAGCAGACCAAGTATCTCACACCGGGTCGAGGATTGCAAGAATTCCAACAGGAAATGGAGGCAAAGCTGAGTTGCCCCAGGAGGTTGCGGCTCCATCTCAAGCAGGACCCCTGGAATCTTCCCAGCAGCATCCAGGCGCTTGCACAGAGCATCAGAAAACATGCTGAAGAAGTGAAGTGCCGCATACTACTGGCTCTCCTTGAATACTCAGACAGTGAAACCCAACTCCGGAGAGACATGGTTTTCTGTCAAAGTCTTGTGGCCACTGTCTGTGCCTTCTCTGAGCAGCTCATGGCTGCCTTAAACCAGATGTTTGACAACAGCAAGGAAAATGAAATGGAGACTTGTGAAGCCAGCAGGAGGTGGCTGGACCAGATTGCAAATGCTGGTGTGCTTTTTCACTTCCAGTCACTTCTGTCACCAAATTTGAAAGATGAACAAGCCATGCTTGAGGATACACTGGTTGCCCTGTTTGATTTGGAAAAAGTTTCCTTCTTCTTCAAACCATCAGAAGAGGATCCACTGGTTGCAAATGTCCCTCTTACCTACCAAGTGGAAGGAAGCAGGCAGGCTCTGAAAGTTTACTTCTACATGGATAGTTACCATTTTGAGCAGCTGCCCCAACGGTTGAAGAATGGAGGAGGGTTTAAAATTCATCCTGTTCTCTTTTCACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCCCAACGGTTGAAGAAT
60.18
TGAGCACTGGGTTCCGGATA
60.62
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCCAACGGTTGAAGAATG
59.76
TGAGCACTGGGTTCCGGATA
60.62
151
PCR template sequence:
AAAGTTTACTTCTACATGGATAGTTACCATTTTGAGCAGCTGCCCCAACGGTTGAAGAATGGAGGAGGGTTTAAAATTCATCCTGTTCTCTTTTCACAAGATGTTATTCTCCAATATCGAGGAGATCCTCATCGTTCATAAGGAGTTCTTGAAAGTTGTAGAAGAATGCTTATATCCGGAACCCAGTGCTCAGCAGGAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
28
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(3), mmu-miR-382-3p(2), mmu-miR-362-5p(2), mmu-miR-129-5p(2), mmu-miR-335-3p(2), mmu-miR-23b-3p(1), mmu-miR-134-5p(1), mmu-miR-429-3p(1), mmu-miR-135a-5p(1), mmu-miR-30e-5p(1), mmu-miR-200c-3p(1), mmu-miR-92a-3p(1), mmu-miR-322-5p(1), mmu-miR-148a-3p(1), mmu-miR-23a-3p(1), mmu-miR-25-3p(1), mmu-miR-24-3p(1), mmu-miR-191-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-342-5p(1), mmu-miR-98-5p(1), mmu-miR-369-3p(1), mmu-miR-669d-5p(1), mmu-miR-484(1), mmu-miR-1904(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCTTTTCACAAGATGTTATTCTCCA
siRNA sets
AATAACATCTTGTGAAAAG, TAACATCTTGTGAAAAGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPREX2_4018_ORF_1
1.0017
0.170483617
1
4059
ORF sequence:
ATGTTATTCTCCAATATCGAGGAGATCCTCATCGTTCATAAGGAGTTCTTGAAAGTTGTAGAAGAATGCTTATATCCGGAACCCAGTGCTCAGCAGGAAGTGGGAGCCTGCTTCCTTCACTTTAAGGACAAGTTTCGTATCTATGATGAATATTGCAGCAACCATGAAAAGGCACAAAAATTGCTTCTTGAACTGAACAAAATAAGAACAATCCGGACATTTCTTCTGAACTGCATGCTGCTTGGAGGTCGGAAGAATACAGACGTTCCCCTGGAAGGATATTTAGTGACACCAATTCAGAGGATATGCAAGTACCCTCTTCTTTTGAAGGAATTACTGAAGCGGACTCCACGGAGACATAGTGACTACACAGCAGTGATGGAAGCACTCCAAGCCATGAAAGCCGTGTGTTCCAACATTAATGAGGCCAAGAGACAGATGGAGAAACTGGAAGTTTTAGAAGAGTGGCAGGCACACATTGAAGGCTGGGAGGGGTCCAACATTACTGACACCTGTACTGAGATGCTGATGTGTGGAGTCCTAATGAAAATTTCTTCCGGAAATATTCAAGAACGAGTGTTTTTTCTTTTTGATAATCTTTTAGTATACTGCAAAAGAAAACACAGACGGCTGAAGAATAGTAAGGCATCCACAGATGGGTATCGGTATGTCTTTCGAGGGCGGATCAATACTGAGGTGATGGAAGTGGAAAATGTGGATGACGGCACAGCTGATTTTCACAGCAGTGGGCATATTGTTGTGAATGGGTGGAAGATACACAACACAGCAAAAAATAAATGGTTTGTATGCATGGCTAAAAGCCCTGAAGAAAAGCATGAGTGGTTTGAAGCTATTTTGAAAGAAAGAGAACGTCGGAAAGGGTTAAAACTAGGAATGGAACAAGACACCTGGGTAATGATCTCTGAGCAGGGTGAGAAATTGTATAAAATGATGTGCAAACAGGGAAATCTGATCAAAGACAGAAAAAGAAAACTGACCACATTTCCTAAGTGCTTCCTGGGAAGTGAATTTGTCTCATGGCTATTGGAAATTGGAGAGATTCACAGGCCCGAAGAAGGTGTTCACTTAGGACAAGCGCTGTTAGAGAATGGGATCATCCACCATGTTACCGATAAGCACCAGTTCAAACCGGAGCAAATGCTATACCGATTCCGTTATGACGATGGTACATTTTACCCCAGGAGTGAGATGCAGGACGTGATTTCTAAGGGTGTAAGGCTCTACTGTCGTCTTCATAGTCTGTTTACCCCAGTGGTCAGAGATAAAGATTACCATTTAAGAACTTACAAATCTGTTGTCATGGCCAACAAATTGATAGACTGGTTAATTGCACAGGGTGATTGCCGTACCAGGGAAGAGGCAATGATATTTGCTGTTGGGCTCTGTGACAATGGATTTATGCATCACGTCCTAGAAAAAAGTGAATTCAAAGATGAGCCTCTACTTTTCCGCTTTTTTGCTGATGAGGAAATGGAAGGATCAAATATGAAGCATAGGCTTATGAAACATGACTTGAAGGTTGTGGAGAATGTCATAGCTAAGTCACTGTTGATTAAATCCAACGAAGGCAGCTATGGCTTTGGCCTAGAAGACAAAAACAAAGTTCCAATAATAAAATTAGTGGAAAAGGGGTCGAATGCCGAGATGGCTGGCATGGAAGTTGGGAAGAAGATATTTGCCATTAATGGTGACCTTGTTTTTCTGAGACCTTTTCCTGAAGTCGATTGCTTCCTGAAATCGTGCTTAAACAGCAGAAAGCCACTGAGAGTCCTCGTGAGCACAAAGCCAAGAGAGACCGTTAAGATTCCAGATTCTGCAGACGGGCTTGGTTTCCAGATCAGAGGCTTTGGACCTTCAGTTGTGCATGCGGTGGGAAGAGGTACTGTGGCTGCAGCAGCTGGCCTTCATCCAGGACAGTGTATTATCAAAGTGAATGGAATCAATGTCAGCAAAGAGACACATGCCAGTGTCATCGCACATGTCACAGCCTGCCGGAAATACAAACGGCCAATGAAGCAAGATTCCATACAGTGGGTCTACGACAGTCTTGAAAGTGCTCAGGAAGACATTCAGAAGTCCCACTCAAAGCCCCCTGGAGACGGGGCTGGAGATGCTTTTGAGTGCAAAGTAGAAGATGTCATTGACAAGTTCAACACCATGGCTATTATTGATGGCAAGAAGGAGCATGTGAGTCTGACGGTGGACAACGTCCACCTCGAGTATGGGGTTGTATATGAGTATGATAGCACGGCGGGCACAAAGTGCAATGTGGTGGAGAAGATGGTGGAGCCCAAAGGGTTCTTCAGCCTAACTGCCAAGATTCTGGAAGCCCTAGCAAAAAGTGACGAACATTTTGTCCAAAACTGCACCAGCCTTAATTCTCTGAATGAAGTGATCGCCACTGATCTTCAGAGTAAATTCACCAGCATGTGCAGTGAGAGAATCGAACATGTGTGTCACAGAATATCCAGCTATGGGAGGTTCTCTCGGGTGCTGAAGAACAGAGCCTGGCCCACCTTTAAGCAGGCCAAACCTAAGATCTCCCCACTGCACAGCAGTGATTTCTGCCCAACCAACTGCCACGTCAATGTGATGGAAGTTTCTTATCCGAAAACATCAACTTCCCTGGGGAGTGCCTTCGGTGTGCAGCTAGATAGCAGAAAACATAATTCTCACGATAAAGAAAATAAATCTGTCGAGCCAGGGAAACTGAGCCCCATGGTGTATATTCAGCACACAATCACAACCATGGCAGCGCCTTCGGGCCTGTCACTGGGACACAAGGATGGGCATGGCCTCCAGTATTTGCTGAAAGAAGAAGACTTAGAAACTCAAGATATCTATCACAAACTTCTGGGCAAGCTGCAGACTGCACTGAAGGAGGTAGAGATGAGCGTTTGTCAAATTGATGACCTTCTGTCTTCAATAACATATTCTCCTAAATTGGAACGTAAGACAACAGAGTGTGTGACACCAATGGACAGTGACAACGAGAAGGGAGAGAGAAATAGCAAACGTGTCTGTTTTAATGTAGCAGGGGATGAGCAAGAGGATTCAGGCCATGATACAGTCAGCAACAGAGACTCTTACAGTGACTGCAACAGCAACAGGAATTCCATTGCTTCCTTCACGAGTATCTGCAGCAGCCAGTGCAGTTCCTACTTCCACAGTGATGAGATGGACTCAGGTGATGAGCTTCCTATCAGTGTCCGGATATCTCATGATAAACAAGACAAGATCCACACTTGCCTGGAACAGCTCTTCAGCCAGATTGATTCAATAATCAACCTCTTGAAAGGACAAGCTGTTATAAGAGCCTTTGAGCAGACCAAGTATCTCACACCGGGTCGAGGATTGCAAGAATTCCAACAGGAAATGGAGGCAAAGCTGAGTTGCCCCAGGAGGTTGCGGCTCCATCTCAAGCAGGACCCCTGGAATCTTCCCAGCAGCATCCAGGCGCTTGCACAGAGCATCAGAAAACATGCTGAAGAAGTGAAGTGCCGCATACTACTGGCTCTCCTTGAATACTCAGACAGTGAAACCCAACTCCGGAGAGACATGGTTTTCTGTCAAAGTCTTGTGGCCACTGTCTGTGCCTTCTCTGAGCAGCTCATGGCTGCCTTAAACCAGATGTTTGACAACAGCAAGGAAAATGAAATGGAGACTTGTGAAGCCAGCAGGAGGTGGCTGGACCAGATTGCAAATGCTGGTGTGCTTTTTCACTTCCAGTCACTTCTGTCACCAAATTTGAAAGATGAACAAGCCATGCTTGAGGATACACTGGTTGCCCTGTTTGATTTGGAAAAAGTTTCCTTCTTCTTCAAACCATCAGAAGAGGATCCACTGGTTGCAAATGTCCCTCTTACCTACCAAGTGGAAGGAAGCAGGCAGGCTCTGAAAGTTTACTTCTACATGGATAGTTACCATTTTGAGCAGCTGCCCCAACGGTTGAAGAATGGAGGAGGGTTTAAAATTCATCCTGTTCTCTTTTCACAAGATGTTATTCTCCAATATCGAGGAGATCCTCATCGTTCATAA
Peptide sequence:
MLFSNIEEILIVHKEFLKVVEECLYPEPSAQQEVGACFLHFKDKFRIYDEYCSNHEKAQKLLLELNKIRTIRTFLLNCMLLGGRKNTDVPLEGYLVTPIQRICKYPLLLKELLKRTPRRHSDYTAVMEALQAMKAVCSNINEAKRQMEKLEVLEEWQAHIEGWEGSNITDTCTEMLMCGVLMKISSGNIQERVFFLFDNLLVYCKRKHRRLKNSKASTDGYRYVFRGRINTEVMEVENVDDGTADFHSSGHIVVNGWKIHNTAKNKWFVCMAKSPEEKHEWFEAILKERERRKGLKLGMEQDTWVMISEQGEKLYKMMCKQGNLIKDRKRKLTTFPKCFLGSEFVSWLLEIGEIHRPEEGVHLGQALLENGIIHHVTDKHQFKPEQMLYRFRYDDGTFYPRSEMQDVISKGVRLYCRLHSLFTPVVRDKDYHLRTYKSVVMANKLIDWLIAQGDCRTREEAMIFAVGLCDNGFMHHVLEKSEFKDEPLLFRFFADEEMEGSNMKHRLMKHDLKVVENVIAKSLLIKSNEGSYGFGLEDKNKVPIIKLVEKGSNAEMAGMEVGKKIFAINGDLVFLRPFPEVDCFLKSCLNSRKPLRVLVSTKPRETVKIPDSADGLGFQIRGFGPSVVHAVGRGTVAAAAGLHPGQCIIKVNGINVSKETHASVIAHVTACRKYKRPMKQDSIQWVYDSLESAQEDIQKSHSKPPGDGAGDAFECKVEDVIDKFNTMAIIDGKKEHVSLTVDNVHLEYGVVYEYDSTAGTKCNVVEKMVEPKGFFSLTAKILEALAKSDEHFVQNCTSLNSLNEVIATDLQSKFTSMCSERIEHVCHRISSYGRFSRVLKNRAWPTFKQAKPKISPLHSSDFCPTNCHVNVMEVSYPKTSTSLGSAFGVQLDSRKHNSHDKENKSVEPGKLSPMVYIQHTITTMAAPSGLSLGHKDGHGLQYLLKEEDLETQDIYHKLLGKLQTALKEVEMSVCQIDDLLSSITYSPKLERKTTECVTPMDSDNEKGERNSKRVCFNVAGDEQEDSGHDTVSNRDSYSDCNSNRNSIASFTSICSSQCSSYFHSDEMDSGDELPISVRISHDKQDKIHTCLEQLFSQIDSIINLLKGQAVIRAFEQTKYLTPGRGLQEFQQEMEAKLSCPRRLRLHLKQDPWNLPSSIQALAQSIRKHAEEVKCRILLALLEYSDSETQLRRDMVFCQSLVATVCAFSEQLMAALNQMFDNSKENEMETCEASRRWLDQIANAGVLFHFQSLLSPNLKDEQAMLEDTLVALFDLEKVSFFFKPSEEDPLVANVPLTYQVEGSRQALKVYFYMDSYHFEQLPQRLKNGGGFKIHPVLFSQDVILQYRGDPHRS
IRESfinder result
IRESfinder score
0.550624088
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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