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mmu_circPhf14_1322
Basic information of circular RNA
PanCircBase ID:
mmu_circPhf14_1322
mm39_Chr. Position ID:
chr6|11933251|11962788|+
Gene name:
Phf14
Transcript:
ENSMUST00000115510.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
3,4,5,6,7
Exon/intron offsets:
0,8177,20035,28297,29399
Genomic length:
29537
Exon/intron sizes in nt:
767,145,160,112,138
Flanking exon/introns:
chr6:11926836-11933251|chr6:11962788-11986340
Splice length:
1322
Other database IDs:
CIRCpedia: MMU_CIRCpedia_218900, circAtlas: mmu-Phf14_0010
circAtlas: hsa-PHF14_0017, CIRCpedia: HSA_CIRCpedia_56292
Human Ortholog IDs:
Mature spliced Sequence:
ATTCTGAAGGGAGTGGTAATGGAAGTGAAGATCCTTCAAAGGACAGTGGAGAAGGTTCCTGTAGTGATTCTGAGGAAAACATTTTAGAAGAAGAACTGAATGAAGATATTCAAGTAAAAGAAGAACAGCTTAAAAATTCTACAGAGGAAATAATGCCATCAGACAAACAGTTAATTAAAATGGAAAAGAAGGAAGAAGAAGAAAACGGAGAAAGACCTAGAAAGAAAAAGGAGAAAGAAAAGGAGAAAGAAAAGGAAAGGGAGAAGGACAAAGAGAAAGCAACAGTATCTGATAGTGCAGCTGCTTCTGCTGCTGGCACCACACCAGCCACAAGCCCTCCTGCTGTCACCTCCCCTTCTGTCCCTACCACCACTACCACCACCACGGAGGAACAAGTCAGTGAGCCCAAGAAATGGAATCTTCGTCGGAACCGTCCCCTGTTGGACTTTGTATCCATGGAAGAACTCAATGCTATGGATGATTATGACAGTGAGGATGATAATGACTGGAGACCTACTGTAGTAAAGAGAAAGGGGCGATCAGCGTCTCAGAAGGAGGGCAGTGATGGAGACAATGAGGATGATGACGATGAGGGAAGTGGGAGTGAGGAAGATGAGAATGATGAGGGCAATGATGAAGATCATAGCAGCCCTGCTAGCGAAGCAGGTGGCAAGAAGAAGAGGAGTAAAGTTCTTAGCAGAAACAGTGCTGATGATGAGGAACTGACCAATGATAGCCTGACCCTATCTCAAAGCAAGAGTAATGAGGACTCTCTGATTCTTGAGAAGAGTCAAAATTGGAGTTCTCAGAAAATGGACCACATTCTGATTTGCTGTGTTTGTCTTGGAGATAATAGTGAAGATGCAGATGAAATAATTCAGTGTGATAATTGTGGCATTACAGTTCATGAAGGTTGTTATGGAGTCGATGGGGAGAGTGACTCTATTATGAGTTCGGCTTCTGAAAACTCCACTGAGCCTTGGTTTTGTGATGCCTGTAAATGTGGTGTATCTCCTAGCTGTGAACTATGTCCTAATCAGGATGGGATTTTCAAGGAGACGGATGCTGGAAGATGGGTCCACATTGTTTGTGCCCTATATGTTCCTGGAGTGGCTTTTGGAGATATTGATAAATTACGACCAGTAACGCTAACAGAAATGAACTATTCTAAATATGGTGCCAAGGAGTGTAGCTTTTGTGAAGATCCTCGCTTTGCTAGAACTGGAGTTTGCATTAGCTGTGATGCAGGCATGTGTAGAGCCTATTTCCATGTCACCTGTGCCCAAAAGGAAGGCCTGCTATCAGAGGCAGCAGCAGAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCATTAGCTGTGATGCAGGC
59.97
CAGGAACCTTCTCCACTGTCC
60
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCATTAGCTGTGATGCAGGC
59.97
AGGAACCTTCTCCACTGTCCT
60.13
152
PCR template sequence:
TGGAGTTTGCATTAGCTGTGATGCAGGCATGTGTAGAGCCTATTTCCATGTCACCTGTGCCCAAAAGGAAGGCCTGCTATCAGAGGCAGCAGCAGAAGAGATTCTGAAGGGAGTGGTAATGGAAGTGAAGATCCTTCAAAGGACAGTGGAGAAGGTTCCTGTAGTGATTCTGAGGAAAACATTTTAGAAGAAGAACTGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-350-3p(2), mmu-miR-23b-3p(1), mmu-miR-223-3p(1), mmu-miR-211-5p(1), mmu-miR-138-5p(1), mmu-miR-139-5p(1), mmu-miR-24-3p(1), mmu-miR-503-5p(1), mmu-miR-96-5p(1), mmu-miR-335-3p(1), mmu-miR-1904(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCAGCAGAAGAGATTCTGAAGGGAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPHF14_1322_ORF_1
1.1318
0.199639318
0.998754558
1257
ORF sequence:
ATGCCATCAGACAAACAGTTAATTAAAATGGAAAAGAAGGAAGAAGAAGAAAACGGAGAAAGACCTAGAAAGAAAAAGGAGAAAGAAAAGGAGAAAGAAAAGGAAAGGGAGAAGGACAAAGAGAAAGCAACAGTATCTGATAGTGCAGCTGCTTCTGCTGCTGGCACCACACCAGCCACAAGCCCTCCTGCTGTCACCTCCCCTTCTGTCCCTACCACCACTACCACCACCACGGAGGAACAAGTCAGTGAGCCCAAGAAATGGAATCTTCGTCGGAACCGTCCCCTGTTGGACTTTGTATCCATGGAAGAACTCAATGCTATGGATGATTATGACAGTGAGGATGATAATGACTGGAGACCTACTGTAGTAAAGAGAAAGGGGCGATCAGCGTCTCAGAAGGAGGGCAGTGATGGAGACAATGAGGATGATGACGATGAGGGAAGTGGGAGTGAGGAAGATGAGAATGATGAGGGCAATGATGAAGATCATAGCAGCCCTGCTAGCGAAGCAGGTGGCAAGAAGAAGAGGAGTAAAGTTCTTAGCAGAAACAGTGCTGATGATGAGGAACTGACCAATGATAGCCTGACCCTATCTCAAAGCAAGAGTAATGAGGACTCTCTGATTCTTGAGAAGAGTCAAAATTGGAGTTCTCAGAAAATGGACCACATTCTGATTTGCTGTGTTTGTCTTGGAGATAATAGTGAAGATGCAGATGAAATAATTCAGTGTGATAATTGTGGCATTACAGTTCATGAAGGTTGTTATGGAGTCGATGGGGAGAGTGACTCTATTATGAGTTCGGCTTCTGAAAACTCCACTGAGCCTTGGTTTTGTGATGCCTGTAAATGTGGTGTATCTCCTAGCTGTGAACTATGTCCTAATCAGGATGGGATTTTCAAGGAGACGGATGCTGGAAGATGGGTCCACATTGTTTGTGCCCTATATGTTCCTGGAGTGGCTTTTGGAGATATTGATAAATTACGACCAGTAACGCTAACAGAAATGAACTATTCTAAATATGGTGCCAAGGAGTGTAGCTTTTGTGAAGATCCTCGCTTTGCTAGAACTGGAGTTTGCATTAGCTGTGATGCAGGCATGTGTAGAGCCTATTTCCATGTCACCTGTGCCCAAAAGGAAGGCCTGCTATCAGAGGCAGCAGCAGAAGAGATTCTGAAGGGAGTGGTAATGGAAGTGAAGATCCTTCAAAGGACAGTGGAGAAGGTTCCTGTAGTGATTCTGAGGAAAACATTTTAG
Peptide sequence:
MPSDKQLIKMEKKEEEENGERPRKKKEKEKEKEKEREKDKEKATVSDSAAASAAGTTPATSPPAVTSPSVPTTTTTTTEEQVSEPKKWNLRRNRPLLDFVSMEELNAMDDYDSEDDNDWRPTVVKRKGRSASQKEGSDGDNEDDDDEGSGSEEDENDEGNDEDHSSPASEAGGKKKRSKVLSRNSADDEELTNDSLTLSQSKSNEDSLILEKSQNWSSQKMDHILICCVCLGDNSEDADEIIQCDNCGITVHEGCYGVDGESDSIMSSASENSTEPWFCDACKCGVSPSCELCPNQDGIFKETDAGRWVHIVCALYVPGVAFGDIDKLRPVTLTEMNYSKYGAKECSFCEDPRFARTGVCISCDAGMCRAYFHVTCAQKEGLLSEAAAEEILKGVVMEVKILQRTVEKVPVVILRKTF
IRESfinder result
IRESfinder score
0.395322192
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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