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mmu_circPhip_2456
Basic information of circular RNA
PanCircBase ID:
mmu_circPhip_2456
mm39_Chr. Position ID:
chr9|82772166|82812427|-
Gene name:
Phip
Transcript:
ENSMUST00000034787.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
20
Exon/intron indexes:
29,28,27,26,25,24,23,22,21,20,19,18,17,16,15,14,13,12,11,10
Exon/intron offsets:
0,247,3209,3411,4120,5908,10508,13010,15535,16827,18577,19673,23574,25182,36283,36921,37986,38715,38861,40190
Genomic length:
40261
Exon/intron sizes in nt:
62,112,83,125,108,120,232,77,141,118,184,138,226,129,135,154,99,41,101,71
Flanking exon/introns:
chr9:82769722-82772166|chr9:82812427-82814538
Splice length:
2456
Other database IDs:
circAtlas: mmu-Phip_0025
Human Ortholog IDs:
Mature spliced Sequence:
TCCAAGACCCACAAAATTTACAGAGCGTCCTCGGCCTGGAGTGCAAATGATATGTTCTTCGTTCAGTGCTGGTGGGATGTTTTTGGCCACTGGAAGCACTGACCATATTATTAGAGTTTATTTTTTTGGATCAGGTCAGCCAGAAAAAATATCAGAATTGGAGTTTCATACTGACAAAGTTGACAGTATCCAGTTTTCCAACACTAGTAACAGGTTTGTGAGTGGTAGTCGTGATGGGACAGCACGAATTTGGCAGTTTAAACGAAGGGAATGGAAAAGCATTTTGTTAGATATGGCTACTCGTCCAGCAGGCCAAAATCTTCAAGGCATAGAAGACAAAATCACAAAAATGAAAGTAACTATGGTAGCTTGGGATCGACATGACAACACAGTTATAACTGCAGTTAATAACATGACTCTGAAAGTTTGGAATTCTTATACTGGTCAACTGATACATGTTCTAATGGGTCATGAAGATGAGGTGTTTGTTCTTGAGCCACACCCATTTGATCCTAGAGTTCTCTTCTCTGCTGGTCATGATGGAAATGTGATAGTGTGGGATCTAGCAAGAGGAGTCAAAGTTCGATCTTATTTCAATATGATTGAAGGACAAGGACATGGTGCAGTGTTTGACTGCAAATGCTCCCCTGATGGTCAGCACTTTGCATGTACAGACTCTCATGGACATCTTTTAATTTTTGGTTTTGGGTCCAGTAGCAAGTATGACAAGATAGCAGATCAGATGTTTTTTCACAGTGATTATCGGCCTCTTATCCGTGATGCGAACAATTTTGTATTAGATGAGCAGACGCAGCAGGCACCTCACCTCATGCCTCCCCCTTTTCTGGTTGATGTTGATGGAAATCCTCATCCATCAAGGTACCAGCGATTGGTTCCTGGTCGGGAGAACTGCAGGGAGGAGCAGCTCATTCCTCAGATGGGAGTAACTTCTTCAGGATTGAACCAAGTTTTGAGCCAGCAAGCAAACCAGGATATTAGTCCTTTAGACAGCATGATTCAAAGACTGCAGCAGGAGCAGGACCTGAGGCGTTCGGGTGAAGCAGGTGTTAGTAATGCCAGCCGTGTGAACAGAGGCTCAGTAAGTTCTACCTCCGAAGTTCATTCACCACCAAATATAGGATTAAGGCGCAGTGGCCAAATCGAAGGTGTACGGCAGATGCACAGCAATGCTCCGAGAAGTGAAATAGCCACAGAGCGAGATCTTGTTGCTTGGAGTCGGAGGGTAGTAGTGCCTGAGCTCTCGGCTGGTGTGGCTAGTAGACAAGAAGAATGGAGAACTGCAAAGGGAGAAGAGGAAATAAAGAGTTATAGATCAGAAGAGAAAAGGAAACACTTAACTGTTGCAAAAGAGAATAAAATACTTACTGTCTCAAAGAATCATGCTCATGAGCATTTCCTGGATCTTGGGGATTCTAAAAAGCAGCAAGCGAATCAGCACAATTACCGTACAAGATCTGCACTGGAAGAAACACCCAGGCCCTTAGAGGAGCTAGAAAACGGAACTAGTTCTTCAGATGAAGGTGAAGTACTTGCTGTCAGTGGTGGGACTTCTGAGGAAGAGGAGCGAGCATGGCACAGTGATGGCAGCTCCAGTGACTACTCCAGTGATTATTCTGATTGGACAGCAGATGCTGGAATTAACTTGCAGCCACCAAAGAAAGTTCCTAAGCATAAAACCAAGAAACCAGAAAGTAGTTCAGATGAAGAAGAAGAATCTGAAAACCAGAAGCAAAAACATATTAAAAAGGAAAGAAAAAAAGCAAATGAAGAAAAAGATGGACCAACATCACCAAAGAAAAAAAAGCCCAAAGAAAGAAAACAAAAGAGATTGGCTGTAGGAGAACTAACTGAGAATGGCCTAACGTTAGAAGAGTGGTTGCCTTCAGCTTGGATTACAGACACACTTCCCAGGAGATGTCCATTTGTGCCACAGATGGGTGATGAGGTTTATTATTTTCGACAAGGGCATGAAGCATATGTTGAAATGGCCCGGAAAAATAAAATTTATAGTATCAATCCTAAAAAGCAGCCATGGCATAAGATGGAACTAAGGGAACAAGAACTAATGAAAATTGTTGGTATAAAGTATGAAGTGGGGTTGCCTACCCTTTGCTGCCTTAAACTTGCTTTTCTAGATCCTGATACTGGCAAACTGACCGGTGGATCATTTACCATGAAATACCATGATATGCCTGACGTCATAGATTTTCTAGTCTTGAGACAACAATTTGATGATGCAAAGTATAGACGATGGAATATAGGTGACCGCTTCAGATCTGTCATAGATGATGCCTGGTGGTTTGGAACAATTGAAAGTCAAGAGCCTCTTCAACCTGAGTACCCTGATAGTTTGTTTCAGTGTTATAATGTATGTTGGGACAATGGAGATACAGAAAAGATGAGTCCTTGGGATATGGAATTAATACCTAATAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAAAAGATGAGTCCTTGGGA
59.35
AGTGCTTCCAGTGGCCAAAA
60.4
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAAAAGATGAGTCCTTGGGA
59.35
GCTTCCAGTGGCCAAAAACA
59.54
143
PCR template sequence:
GAGTACCCTGATAGTTTGTTTCAGTGTTATAATGTATGTTGGGACAATGGAGATACAGAAAAGATGAGTCCTTGGGATATGGAATTAATACCTAATAATGTCCAAGACCCACAAAATTTACAGAGCGTCCTCGGCCTGGAGTGCAAATGATATGTTCTTCGTTCAGTGCTGGTGGGATGTTTTTGGCCACTGGAAGCACT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
30
Interacting miRNAs (#binding sites)
mmu-miR-29b-1-5p(3), mmu-miR-495-3p(2), mmu-miR-136-5p(2), mmu-miR-207(2), mmu-miR-9-5p(1), mmu-miR-23b-3p(1), mmu-miR-20b-5p(1), mmu-let-7a-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-let-7e-5p(1), mmu-miR-223-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-106b-5p(1), mmu-miR-146a-5p(1), mmu-miR-23a-3p(1), mmu-let-7d-5p(1), mmu-miR-382-5p(1), mmu-miR-370-3p(1), mmu-miR-98-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-129-5p(1), mmu-miR-335-3p(1), mmu-miR-532-5p(1), mmu-miR-1904(1), mmu-miR-344-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATACCTAATAATGTCCAAGACCCACA
siRNA sets
GGTCTTGGACATTATTAGG, GTCTTGGACATTATTAGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPHIP_2456_ORF_1
0.9848
0.034837116
0.999999425
2460
ORF sequence:
ATGATATGTTCTTCGTTCAGTGCTGGTGGGATGTTTTTGGCCACTGGAAGCACTGACCATATTATTAGAGTTTATTTTTTTGGATCAGGTCAGCCAGAAAAAATATCAGAATTGGAGTTTCATACTGACAAAGTTGACAGTATCCAGTTTTCCAACACTAGTAACAGGTTTGTGAGTGGTAGTCGTGATGGGACAGCACGAATTTGGCAGTTTAAACGAAGGGAATGGAAAAGCATTTTGTTAGATATGGCTACTCGTCCAGCAGGCCAAAATCTTCAAGGCATAGAAGACAAAATCACAAAAATGAAAGTAACTATGGTAGCTTGGGATCGACATGACAACACAGTTATAACTGCAGTTAATAACATGACTCTGAAAGTTTGGAATTCTTATACTGGTCAACTGATACATGTTCTAATGGGTCATGAAGATGAGGTGTTTGTTCTTGAGCCACACCCATTTGATCCTAGAGTTCTCTTCTCTGCTGGTCATGATGGAAATGTGATAGTGTGGGATCTAGCAAGAGGAGTCAAAGTTCGATCTTATTTCAATATGATTGAAGGACAAGGACATGGTGCAGTGTTTGACTGCAAATGCTCCCCTGATGGTCAGCACTTTGCATGTACAGACTCTCATGGACATCTTTTAATTTTTGGTTTTGGGTCCAGTAGCAAGTATGACAAGATAGCAGATCAGATGTTTTTTCACAGTGATTATCGGCCTCTTATCCGTGATGCGAACAATTTTGTATTAGATGAGCAGACGCAGCAGGCACCTCACCTCATGCCTCCCCCTTTTCTGGTTGATGTTGATGGAAATCCTCATCCATCAAGGTACCAGCGATTGGTTCCTGGTCGGGAGAACTGCAGGGAGGAGCAGCTCATTCCTCAGATGGGAGTAACTTCTTCAGGATTGAACCAAGTTTTGAGCCAGCAAGCAAACCAGGATATTAGTCCTTTAGACAGCATGATTCAAAGACTGCAGCAGGAGCAGGACCTGAGGCGTTCGGGTGAAGCAGGTGTTAGTAATGCCAGCCGTGTGAACAGAGGCTCAGTAAGTTCTACCTCCGAAGTTCATTCACCACCAAATATAGGATTAAGGCGCAGTGGCCAAATCGAAGGTGTACGGCAGATGCACAGCAATGCTCCGAGAAGTGAAATAGCCACAGAGCGAGATCTTGTTGCTTGGAGTCGGAGGGTAGTAGTGCCTGAGCTCTCGGCTGGTGTGGCTAGTAGACAAGAAGAATGGAGAACTGCAAAGGGAGAAGAGGAAATAAAGAGTTATAGATCAGAAGAGAAAAGGAAACACTTAACTGTTGCAAAAGAGAATAAAATACTTACTGTCTCAAAGAATCATGCTCATGAGCATTTCCTGGATCTTGGGGATTCTAAAAAGCAGCAAGCGAATCAGCACAATTACCGTACAAGATCTGCACTGGAAGAAACACCCAGGCCCTTAGAGGAGCTAGAAAACGGAACTAGTTCTTCAGATGAAGGTGAAGTACTTGCTGTCAGTGGTGGGACTTCTGAGGAAGAGGAGCGAGCATGGCACAGTGATGGCAGCTCCAGTGACTACTCCAGTGATTATTCTGATTGGACAGCAGATGCTGGAATTAACTTGCAGCCACCAAAGAAAGTTCCTAAGCATAAAACCAAGAAACCAGAAAGTAGTTCAGATGAAGAAGAAGAATCTGAAAACCAGAAGCAAAAACATATTAAAAAGGAAAGAAAAAAAGCAAATGAAGAAAAAGATGGACCAACATCACCAAAGAAAAAAAAGCCCAAAGAAAGAAAACAAAAGAGATTGGCTGTAGGAGAACTAACTGAGAATGGCCTAACGTTAGAAGAGTGGTTGCCTTCAGCTTGGATTACAGACACACTTCCCAGGAGATGTCCATTTGTGCCACAGATGGGTGATGAGGTTTATTATTTTCGACAAGGGCATGAAGCATATGTTGAAATGGCCCGGAAAAATAAAATTTATAGTATCAATCCTAAAAAGCAGCCATGGCATAAGATGGAACTAAGGGAACAAGAACTAATGAAAATTGTTGGTATAAAGTATGAAGTGGGGTTGCCTACCCTTTGCTGCCTTAAACTTGCTTTTCTAGATCCTGATACTGGCAAACTGACCGGTGGATCATTTACCATGAAATACCATGATATGCCTGACGTCATAGATTTTCTAGTCTTGAGACAACAATTTGATGATGCAAAGTATAGACGATGGAATATAGGTGACCGCTTCAGATCTGTCATAGATGATGCCTGGTGGTTTGGAACAATTGAAAGTCAAGAGCCTCTTCAACCTGAGTACCCTGATAGTTTGTTTCAGTGTTATAATGTATGTTGGGACAATGGAGATACAGAAAAGATGAGTCCTTGGGATATGGAATTAATACCTAATAATGTCCAAGACCCACAAAATTTACAGAGCGTCCTCGGCCTGGAGTGCAAATGA
Peptide sequence:
MICSSFSAGGMFLATGSTDHIIRVYFFGSGQPEKISELEFHTDKVDSIQFSNTSNRFVSGSRDGTARIWQFKRREWKSILLDMATRPAGQNLQGIEDKITKMKVTMVAWDRHDNTVITAVNNMTLKVWNSYTGQLIHVLMGHEDEVFVLEPHPFDPRVLFSAGHDGNVIVWDLARGVKVRSYFNMIEGQGHGAVFDCKCSPDGQHFACTDSHGHLLIFGFGSSSKYDKIADQMFFHSDYRPLIRDANNFVLDEQTQQAPHLMPPPFLVDVDGNPHPSRYQRLVPGRENCREEQLIPQMGVTSSGLNQVLSQQANQDISPLDSMIQRLQQEQDLRRSGEAGVSNASRVNRGSVSSTSEVHSPPNIGLRRSGQIEGVRQMHSNAPRSEIATERDLVAWSRRVVVPELSAGVASRQEEWRTAKGEEEIKSYRSEEKRKHLTVAKENKILTVSKNHAHEHFLDLGDSKKQQANQHNYRTRSALEETPRPLEELENGTSSSDEGEVLAVSGGTSEEEERAWHSDGSSSDYSSDYSDWTADAGINLQPPKKVPKHKTKKPESSSDEEEESENQKQKHIKKERKKANEEKDGPTSPKKKKPKERKQKRLAVGELTENGLTLEEWLPSAWITDTLPRRCPFVPQMGDEVYYFRQGHEAYVEMARKNKIYSINPKKQPWHKMELREQELMKIVGIKYEVGLPTLCCLKLAFLDPDTGKLTGGSFTMKYHDMPDVIDFLVLRQQFDDAKYRRWNIGDRFRSVIDDAWWFGTIESQEPLQPEYPDSLFQCYNVCWDNGDTEKMSPWDMELIPNNVQDPQNLQSVLGLECK
IRESfinder result
IRESfinder score
0.548307161
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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