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mmu_circPhldb2_2118
Basic information of circular RNA
PanCircBase ID:
mmu_circPhldb2_2118
mm39_Chr. Position ID:
chr16|45621854|45680799|-
Gene name:
Phldb2
Transcript:
ENSMUST00000134802.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,1204,6634,23267,58830
Genomic length:
58945
Exon/intron sizes in nt:
1,38,14,43,84,13,37,110
Flanking exon/introns:
chr16:45609480-45621854|chr16:45680799-45773738
Splice length:
2118
Other database IDs:
circAtlas: mmu-Phldb2_0025
CIRCpedia: HSA_CIRCpedia_370312
Human Ortholog IDs:
Mature spliced Sequence:
CTTGGCATGGATCCCAGGGTCTCCTCTGAGAATCATCAGAAGATCCCGATGGAGGAGGAAGATGAAGCAAGAGAGGAGCCCAAGAATGGTGGAGCTGATGACCCAGAGCCCTTTGGATCCAGCCATATTATGGCAGAAGATAGCCACATGCAAAAGCAGCTGGAATTCCAAAATGGTAGCTTAGAGGAAGGATTTGTGGTACGTTCCCTGGAGAACGAGCCCCAAAACATGATGGAGAGCCTAAGCCCGAGGAAATACTCATCAAGTCTGAAGTTTAAAGCCAACGGGGACTATTCTGGCTCCTATTTAACCCTCTCCCAACCGGTGTCTGCCAAGAGAAGCCCTTCTCCAATGGGCACCAGCGTCAGGAGCAGTCCCTCCTTGGCCAAAATCCAGGGAAGCAAACAGTTCTGCGATGGAATTGATAAAAATATTTCCATGAAACCTCCTATTTCTTTCCTCAGTTCTGCAGCCTCTCTTGGCGGCTATCCTCTTGGGAAAGCAGATTTGGATCATTATACTGGTCGAGACAGTGAGAGGTCCACCAGGCTCTCAGAGAAGCCTCCCTATTCCAGATACAGCTCTAGGAATAAATCTCATGACAGTGTCTACTTTCTAGGGGGGCTGGAAGGAAGAAAAACCTCTGGCTCGCTCCTGACCATGTGGAACGGAAATTCCTTGAGCTGCACTGGCTCGTCACCCATCAGCAGGTCTGGGGCAGCGAGCATGCCTTCAAGTCCAAAGCAAGTCAGGAAGATGAACCTTCAGGACCACTCGACACTTCAGCCCAGGTTAAGCAGGCACAAGGAGCCGGCCTCAGAAAACGTCAGTGTGAGAACAAGGAAATACTCAGGGAGCAGTCTGAGTAATATGGGTGCCTACAGCCGATCGCTTCCCAGGTTGTATAAAGCCACAGACAACCAGATGTCGCCTCTCAGCCTGCCTCCAAGAAGTTCCCTGGGCAATTCCAGAAGAGGTCAGTTAGGAGAAAAGGATCTACCTCATAGCCTAGTGGATAGTGACAATTACCTTAACTTTTCTTCTCTAAGCTCAGGGGCTTCACCCTATAAAACCTGTCTGTCAGAGGGAAATCCTTACGTAAGCTCCGCCCTCAGTGTTCCTGCCAGTCCTCGTGTGGCTCGGAAGATGCTCCTGGCCTCCACCTCCTCTGATGACTTTGATAGGGCTTCATACTCAGGGACCAGCCCAAGTCATTCCTTCATTTCTGGAGAGCCAGACCGAGTGCTTGTGGCCAGGAGGAACTTCTCTTGTGGATCAATGGAGCTTGATGACTCTGATCTGGAAAGCCTAAGACAGTCGTCAGAAACTCCGCAGCCGGTCCTTCGAGAAAGGAAAAGTAGCATTAGCTCCATCTCGGGACGCGACGACCTGATGGATTATCACCGAAGACAGAGGGAGGAGAGACTCAGGGAGCAGGAGATGGAGCGACTGGAGCGGCAGCGGCTGGAGACCATCCTCAGTCTCTGTGCTGAGTATACAAAGCCTGAAGGTCGCCGCCTGTCCGCTGGCACCACGGTGGCTGATGTGCAGAAAATCAACAAGGAGCTTGAGAAGCTGCAGCTGTCGGATGAGGAGTCTGTGTTCGAGGACGCTCTGGTGTGCCCCGATGCCAGGTACAGGTGCCACCGGAAGGGCTCTCTCCAGGATGTTGACGTTGCTGGCTTCGGGAACCTTGGTCACAGTGCCAGCTTCCTGGCCCCCAGGGGCAGCAGGAGCGATGAACTGCTTGGTGACCTCACTAGGACGCCCCCATCATCCTCAGCCGCGTTTCTGAAAGCAACCAATGAGTCCTCCTACCTCAGTATCCTTCCGAAGACCCCAGAGGATATAGGTGAGGAACAGAGGACTCAAGAGTTGGCTGCAATGGAAGACGCCCGGATGGTGATTCTGAACAACCTTGAGGAACTTGAGCAGAAAATCAAAGATATAAATGACCAAATGGATGAATCTTCCAGAGAGTTGGATATGGAATGCGCTCTTTTGGATGGAGAACAGAAATCCGAGACGGCTGAGCTCATGAAGGAAAAGGAGATTCTAGATCATCTAAACCGGAAAATCACGGAACTAGAAAAGAACATCGTAGGCGAGAAGACTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGCTGAGCTCATGAAGGAA
60.11
TTGGGCTCCTCTCTTGCTTC
59.67
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGGCTGAGCTCATGAAGGAA
60.11
TTCTTGGGCTCCTCTCTTGC
59.67
178
PCR template sequence:
ATCCGAGACGGCTGAGCTCATGAAGGAAAAGGAGATTCTAGATCATCTAAACCGGAAAATCACGGAACTAGAAAAGAACATCGTAGGCGAGAAGACTAAGCTTGGCATGGATCCCAGGGTCTCCTCTGAGAATCATCAGAAGATCCCGATGGAGGAGGAAGATGAAGCAAGAGAGGAGCCCAAGAATGGTGGAGCTGATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
23
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(3), mmu-miR-670-5p(3), mmu-miR-326-3p(2), mmu-miR-351-5p(2), mmu-miR-155-5p(1), mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-125b-5p(1), mmu-let-7d-5p(1), mmu-miR-125a-5p(1), mmu-miR-370-3p(1), mmu-miR-541-5p(1), mmu-miR-98-5p(1), mmu-miR-27a-5p(1), mmu-miR-384-3p(1), mmu-miR-207(1), mmu-miR-697(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
CGAGAAGACTAAGCTTGGCATGGATC
siRNA sets
ATCCATGCCAAGCTTAGTC, ATGCCAAGCTTAGTCTTCT, GATCCATGCCAAGCTTAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPHLDB2_2118_ORF_1
0.8124
0.253316416
1
4230
ORF sequence:
ATGGATCCCAGGGTCTCCTCTGAGAATCATCAGAAGATCCCGATGGAGGAGGAAGATGAAGCAAGAGAGGAGCCCAAGAATGGTGGAGCTGATGACCCAGAGCCCTTTGGATCCAGCCATATTATGGCAGAAGATAGCCACATGCAAAAGCAGCTGGAATTCCAAAATGGTAGCTTAGAGGAAGGATTTGTGGTACGTTCCCTGGAGAACGAGCCCCAAAACATGATGGAGAGCCTAAGCCCGAGGAAATACTCATCAAGTCTGAAGTTTAAAGCCAACGGGGACTATTCTGGCTCCTATTTAACCCTCTCCCAACCGGTGTCTGCCAAGAGAAGCCCTTCTCCAATGGGCACCAGCGTCAGGAGCAGTCCCTCCTTGGCCAAAATCCAGGGAAGCAAACAGTTCTGCGATGGAATTGATAAAAATATTTCCATGAAACCTCCTATTTCTTTCCTCAGTTCTGCAGCCTCTCTTGGCGGCTATCCTCTTGGGAAAGCAGATTTGGATCATTATACTGGTCGAGACAGTGAGAGGTCCACCAGGCTCTCAGAGAAGCCTCCCTATTCCAGATACAGCTCTAGGAATAAATCTCATGACAGTGTCTACTTTCTAGGGGGGCTGGAAGGAAGAAAAACCTCTGGCTCGCTCCTGACCATGTGGAACGGAAATTCCTTGAGCTGCACTGGCTCGTCACCCATCAGCAGGTCTGGGGCAGCGAGCATGCCTTCAAGTCCAAAGCAAGTCAGGAAGATGAACCTTCAGGACCACTCGACACTTCAGCCCAGGTTAAGCAGGCACAAGGAGCCGGCCTCAGAAAACGTCAGTGTGAGAACAAGGAAATACTCAGGGAGCAGTCTGAGTAATATGGGTGCCTACAGCCGATCGCTTCCCAGGTTGTATAAAGCCACAGACAACCAGATGTCGCCTCTCAGCCTGCCTCCAAGAAGTTCCCTGGGCAATTCCAGAAGAGGTCAGTTAGGAGAAAAGGATCTACCTCATAGCCTAGTGGATAGTGACAATTACCTTAACTTTTCTTCTCTAAGCTCAGGGGCTTCACCCTATAAAACCTGTCTGTCAGAGGGAAATCCTTACGTAAGCTCCGCCCTCAGTGTTCCTGCCAGTCCTCGTGTGGCTCGGAAGATGCTCCTGGCCTCCACCTCCTCTGATGACTTTGATAGGGCTTCATACTCAGGGACCAGCCCAAGTCATTCCTTCATTTCTGGAGAGCCAGACCGAGTGCTTGTGGCCAGGAGGAACTTCTCTTGTGGATCAATGGAGCTTGATGACTCTGATCTGGAAAGCCTAAGACAGTCGTCAGAAACTCCGCAGCCGGTCCTTCGAGAAAGGAAAAGTAGCATTAGCTCCATCTCGGGACGCGACGACCTGATGGATTATCACCGAAGACAGAGGGAGGAGAGACTCAGGGAGCAGGAGATGGAGCGACTGGAGCGGCAGCGGCTGGAGACCATCCTCAGTCTCTGTGCTGAGTATACAAAGCCTGAAGGTCGCCGCCTGTCCGCTGGCACCACGGTGGCTGATGTGCAGAAAATCAACAAGGAGCTTGAGAAGCTGCAGCTGTCGGATGAGGAGTCTGTGTTCGAGGACGCTCTGGTGTGCCCCGATGCCAGGTACAGGTGCCACCGGAAGGGCTCTCTCCAGGATGTTGACGTTGCTGGCTTCGGGAACCTTGGTCACAGTGCCAGCTTCCTGGCCCCCAGGGGCAGCAGGAGCGATGAACTGCTTGGTGACCTCACTAGGACGCCCCCATCATCCTCAGCCGCGTTTCTGAAAGCAACCAATGAGTCCTCCTACCTCAGTATCCTTCCGAAGACCCCAGAGGATATAGGTGAGGAACAGAGGACTCAAGAGTTGGCTGCAATGGAAGACGCCCGGATGGTGATTCTGAACAACCTTGAGGAACTTGAGCAGAAAATCAAAGATATAAATGACCAAATGGATGAATCTTCCAGAGAGTTGGATATGGAATGCGCTCTTTTGGATGGAGAACAGAAATCCGAGACGGCTGAGCTCATGAAGGAAAAGGAGATTCTAGATCATCTAAACCGGAAAATCACGGAACTAGAAAAGAACATCGTAGGCGAGAAGACTAAGCTTGGCATGGATCCCAGGGTCTCCTCTGAGAATCATCAGAAGATCCCGATGGAGGAGGAAGATGAAGCAAGAGAGGAGCCCAAGAATGGTGGAGCTGATGACCCAGAGCCCTTTGGATCCAGCCATATTATGGCAGAAGATAGCCACATGCAAAAGCAGCTGGAATTCCAAAATGGTAGCTTAGAGGAAGGATTTGTGGTACGTTCCCTGGAGAACGAGCCCCAAAACATGATGGAGAGCCTAAGCCCGAGGAAATACTCATCAAGTCTGAAGTTTAAAGCCAACGGGGACTATTCTGGCTCCTATTTAACCCTCTCCCAACCGGTGTCTGCCAAGAGAAGCCCTTCTCCAATGGGCACCAGCGTCAGGAGCAGTCCCTCCTTGGCCAAAATCCAGGGAAGCAAACAGTTCTGCGATGGAATTGATAAAAATATTTCCATGAAACCTCCTATTTCTTTCCTCAGTTCTGCAGCCTCTCTTGGCGGCTATCCTCTTGGGAAAGCAGATTTGGATCATTATACTGGTCGAGACAGTGAGAGGTCCACCAGGCTCTCAGAGAAGCCTCCCTATTCCAGATACAGCTCTAGGAATAAATCTCATGACAGTGTCTACTTTCTAGGGGGGCTGGAAGGAAGAAAAACCTCTGGCTCGCTCCTGACCATGTGGAACGGAAATTCCTTGAGCTGCACTGGCTCGTCACCCATCAGCAGGTCTGGGGCAGCGAGCATGCCTTCAAGTCCAAAGCAAGTCAGGAAGATGAACCTTCAGGACCACTCGACACTTCAGCCCAGGTTAAGCAGGCACAAGGAGCCGGCCTCAGAAAACGTCAGTGTGAGAACAAGGAAATACTCAGGGAGCAGTCTGAGTAATATGGGTGCCTACAGCCGATCGCTTCCCAGGTTGTATAAAGCCACAGACAACCAGATGTCGCCTCTCAGCCTGCCTCCAAGAAGTTCCCTGGGCAATTCCAGAAGAGGTCAGTTAGGAGAAAAGGATCTACCTCATAGCCTAGTGGATAGTGACAATTACCTTAACTTTTCTTCTCTAAGCTCAGGGGCTTCACCCTATAAAACCTGTCTGTCAGAGGGAAATCCTTACGTAAGCTCCGCCCTCAGTGTTCCTGCCAGTCCTCGTGTGGCTCGGAAGATGCTCCTGGCCTCCACCTCCTCTGATGACTTTGATAGGGCTTCATACTCAGGGACCAGCCCAAGTCATTCCTTCATTTCTGGAGAGCCAGACCGAGTGCTTGTGGCCAGGAGGAACTTCTCTTGTGGATCAATGGAGCTTGATGACTCTGATCTGGAAAGCCTAAGACAGTCGTCAGAAACTCCGCAGCCGGTCCTTCGAGAAAGGAAAAGTAGCATTAGCTCCATCTCGGGACGCGACGACCTGATGGATTATCACCGAAGACAGAGGGAGGAGAGACTCAGGGAGCAGGAGATGGAGCGACTGGAGCGGCAGCGGCTGGAGACCATCCTCAGTCTCTGTGCTGAGTATACAAAGCCTGAAGGTCGCCGCCTGTCCGCTGGCACCACGGTGGCTGATGTGCAGAAAATCAACAAGGAGCTTGAGAAGCTGCAGCTGTCGGATGAGGAGTCTGTGTTCGAGGACGCTCTGGTGTGCCCCGATGCCAGGTACAGGTGCCACCGGAAGGGCTCTCTCCAGGATGTTGACGTTGCTGGCTTCGGGAACCTTGGTCACAGTGCCAGCTTCCTGGCCCCCAGGGGCAGCAGGAGCGATGAACTGCTTGGTGACCTCACTAGGACGCCCCCATCATCCTCAGCCGCGTTTCTGAAAGCAACCAATGAGTCCTCCTACCTCAGTATCCTTCCGAAGACCCCAGAGGATATAGGTGAGGAACAGAGGACTCAAGAGTTGGCTGCAATGGAAGACGCCCGGATGGTGATTCTGAACAACCTTGAGGAACTTGAGCAGAAAATCAAAGATATAAATGACCAAATGGATGAATCTTCCAGAGAGTTGGATATGGAATGCGCTCTTTTGGATGGAGAACAGAAATCCGAGACGGCTGAGCTCATGAAGGAAAAGGAGATTCTAGATCATCTAAACCGGAAAATCACGGAACTAGAAAAGAACATCGTAGGCGAGAAGACTAAG
Peptide sequence:
MDPRVSSENHQKIPMEEEDEAREEPKNGGADDPEPFGSSHIMAEDSHMQKQLEFQNGSLEEGFVVRSLENEPQNMMESLSPRKYSSSLKFKANGDYSGSYLTLSQPVSAKRSPSPMGTSVRSSPSLAKIQGSKQFCDGIDKNISMKPPISFLSSAASLGGYPLGKADLDHYTGRDSERSTRLSEKPPYSRYSSRNKSHDSVYFLGGLEGRKTSGSLLTMWNGNSLSCTGSSPISRSGAASMPSSPKQVRKMNLQDHSTLQPRLSRHKEPASENVSVRTRKYSGSSLSNMGAYSRSLPRLYKATDNQMSPLSLPPRSSLGNSRRGQLGEKDLPHSLVDSDNYLNFSSLSSGASPYKTCLSEGNPYVSSALSVPASPRVARKMLLASTSSDDFDRASYSGTSPSHSFISGEPDRVLVARRNFSCGSMELDDSDLESLRQSSETPQPVLRERKSSISSISGRDDLMDYHRRQREERLREQEMERLERQRLETILSLCAEYTKPEGRRLSAGTTVADVQKINKELEKLQLSDEESVFEDALVCPDARYRCHRKGSLQDVDVAGFGNLGHSASFLAPRGSRSDELLGDLTRTPPSSSAAFLKATNESSYLSILPKTPEDIGEEQRTQELAAMEDARMVILNNLEELEQKIKDINDQMDESSRELDMECALLDGEQKSETAELMKEKEILDHLNRKITELEKNIVGEKTKLGMDPRVSSENHQKIPMEEEDEAREEPKNGGADDPEPFGSSHIMAEDSHMQKQLEFQNGSLEEGFVVRSLENEPQNMMESLSPRKYSSSLKFKANGDYSGSYLTLSQPVSAKRSPSPMGTSVRSSPSLAKIQGSKQFCDGIDKNISMKPPISFLSSAASLGGYPLGKADLDHYTGRDSERSTRLSEKPPYSRYSSRNKSHDSVYFLGGLEGRKTSGSLLTMWNGNSLSCTGSSPISRSGAASMPSSPKQVRKMNLQDHSTLQPRLSRHKEPASENVSVRTRKYSGSSLSNMGAYSRSLPRLYKATDNQMSPLSLPPRSSLGNSRRGQLGEKDLPHSLVDSDNYLNFSSLSSGASPYKTCLSEGNPYVSSALSVPASPRVARKMLLASTSSDDFDRASYSGTSPSHSFISGEPDRVLVARRNFSCGSMELDDSDLESLRQSSETPQPVLRERKSSISSISGRDDLMDYHRRQREERLREQEMERLERQRLETILSLCAEYTKPEGRRLSAGTTVADVQKINKELEKLQLSDEESVFEDALVCPDARYRCHRKGSLQDVDVAGFGNLGHSASFLAPRGSRSDELLGDLTRTPPSSSAAFLKATNESSYLSILPKTPEDIGEEQRTQELAAMEDARMVILNNLEELEQKIKDINDQMDESSRELDMECALLDGEQKSETAELMKEKEILDHLNRKITELEKNIVGEKTK
IRESfinder result
IRESfinder score
0.44983039
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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