General information for g13575.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine/threonine-protein kinase PLK4.
Parent gene
- The parent gene g13575 is located on chr_1: 31004227..31006689 (+ strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_1 | g13575 | g13575.t1 | TSS | g13575.t1 | 31004092 | 31004092 |
| chr_1 | g13575 | g13575.t1 | isoform | g13575.t1 | 31004227 | 31006689 |
| chr_1 | g13575 | g13575.t1 | exon | g13575.t1.exon1 | 31004227 | 31004253 |
| chr_1 | g13575 | g13575.t1 | cds | g13575.t1.CDS1 | 31004227 | 31004253 |
| chr_1 | g13575 | g13575.t1 | exon | g13575.t1.exon2 | 31004320 | 31004415 |
| chr_1 | g13575 | g13575.t1 | cds | g13575.t1.CDS2 | 31004320 | 31004415 |
| chr_1 | g13575 | g13575.t1 | exon | g13575.t1.exon3 | 31004482 | 31006689 |
| chr_1 | g13575 | g13575.t1 | cds | g13575.t1.CDS3 | 31004482 | 31006689 |
| chr_1 | g13575 | g13575.t1 | TTS | g13575.t1 | 31006896 | 31006896 |
Sequences
>g13575.t1 Gene=g13575 Length=2331
ATGGACGAATTTAGTTTAGATATCGAGGATTATGATATCTATGAAGAACTTGGAAAAGGA
GGGTTTGCTACAGTTTATAGAGCGAGATGTCGACCTTTAAATCAAGAAGTGGCAATAAAA
ATGATCGATAAACATCAAATGCAGGCCAAAAATATGACAGAACGAGTGCAGCAAGAAGTT
CACATTCACGCACGACTCAAGCATCCATCAATTTTGGATTTGTATACATTCTTTGAAGAT
AATAATTATGTTTATCTCGTGCTTGAACTTGCACATAAAGGAACTCTGTATAAATATTTA
AACGGAAGAACATTAAGCGAGGGAGAAGCCGCATACATCATTTCACAAGTTGCCAATGGT
CTTATGTATTTACAATCAAACAAAATCATGCATCGAGATATTTCGATGTCAAATTTACTT
CTAACTGCAAATATGCAAGTAAAAATTTCCGATTTCGGTCTCGCTACACAAATTGACCAA
TTTTATGGCAATAAACATACAACACTCTGTGGTACACCAAATTATATATCGCCAGAAGTA
GCAACTCGCTCATCACACGGTCTTAAAACTGACAATTGGAGCTTAGGCTGCTTGCTGTAT
ACACTTTTAGTTGGTCGACCACCATTTGATACAAACGGTGTTAAATCAACATTGACGCAA
GTAGTGATGGGAAATTATTCAATTCCCAATCATTTATCTGCTGAAGCACAGGATCTTATA
AAACAATTATTATGCAAGGATCAATCAAAGCGAATAGAATTGAAGCAGGTTATAGCACAT
TCATTTTTCTCAAAATACAGTAATATTATTCACAATAGCAATCATATGAAAACTCTGGAT
AGTGGTATTGTAACATTTTCAACATCTTCAAAGCACAGTACTCGATCTAGATCGATGGAG
GTTCTCAATAGCATTCATAACAATAATAATTTTCAAAATCCTGTTGAGCAGACGACGCCA
CATGTAATTGGATCTCTATATCGCTGCATGAGCAGTGTGAGCCTTAGCAAACAGCAACAG
CAATCAATTCCAATTACGTCAATGCATTCACAACAACATCAGCAGTACTCGATACAAATG
AATCCAATTGTGAGCTATCAAAAGAAATTGGATGTACCACCATTGTGTACAACAAGATTA
CAGCCGACACGACATCAAATGAAGAATGTCGTTATGAGTATTATGAATGAGCCTCGGGGC
GAAGTTGTTGTCGAGTTACTCAAATATAAAGCAAAAAGCGATGAGTATCGAGTAATGGAA
GTTTGCAGAATTTCTAATGATGGTCTGAGAATTGTCATTTATCAACCGAATAAAGGAAAA
GGTATTAGAATGCAAAATCAACCGCCCGCAACACCAAATGATGGCGTAGATTTTATTTAT
AGCTATGAAAATCTCCCAGAGAAACATTTTAAGAAATATTTATATGCTCATCGTTTCATT
CAAATGGTACGTGCGAAAACGCCAAAAGTCACTTTCTATAGTGAACTAGCAAAATGTCAA
TTGATGGAAACTCTCGAGGATTTCGAAATGATTCTCTATAATAGCAACGGTACAGTAACT
AAGCGAAAAGGTACTTCATGCGAATTTCATATACAGCTCGATACGAATATAAATGAACAA
CAGCAACCTACACACGATCAACAGAAAATCACTCAGCATGCGGAAGAATGCTATCAGCAT
TGTGTAAACATTGAAAAGCTGTTGTCACTGACATCGTTGAATCAACCATGCTTTCCCATT
ATCATTGGTCGTCGTCCAAGTGAGAATAATCTCGATGATGGAAAAAATGTGCTACAAGAT
CACCAAAATACATTCAATAATTACATATCAAGTTCACAGACACCTCTACGAACGCCAAAA
ATAAATATGCCATCATTTTCTCTCGAACAAACGCCTTCACCAATCGTGAAACCATCAATT
AGTAATGCCAATAATTATCGATATCCTGAAACACCAACATCGTCTCCACAGTATCATAAT
CAACATCACAAAATGACAAGCACCACCATTCCGGGCATTGGTCATGCAACACTCTTATCA
GATGGGACATTTGAAATTAATTACTTCGATGGATCAAGAATTATCGTGCTAACTGAACAA
CAAGGCAGTGGTATAGTGTATAGCGCATCAAATATAGCTAGCAGCATAAGATATCATGCG
AATGATTTAATGCCAGAAGTAGTTAAATCGAAATTTAATCAATTACCAAACATATTGAGT
CATTTGAAACCACGTGATGTTGGATTTATTACATCAACGCCATTACAGCATCAAGAATAT
AATCCCGTTTTTCATTCAAATCGGTTAAATCATATGAAATTCATGAGATGA
>g13575.t1 Gene=g13575 Length=776
MDEFSLDIEDYDIYEELGKGGFATVYRARCRPLNQEVAIKMIDKHQMQAKNMTERVQQEV
HIHARLKHPSILDLYTFFEDNNYVYLVLELAHKGTLYKYLNGRTLSEGEAAYIISQVANG
LMYLQSNKIMHRDISMSNLLLTANMQVKISDFGLATQIDQFYGNKHTTLCGTPNYISPEV
ATRSSHGLKTDNWSLGCLLYTLLVGRPPFDTNGVKSTLTQVVMGNYSIPNHLSAEAQDLI
KQLLCKDQSKRIELKQVIAHSFFSKYSNIIHNSNHMKTLDSGIVTFSTSSKHSTRSRSME
VLNSIHNNNNFQNPVEQTTPHVIGSLYRCMSSVSLSKQQQQSIPITSMHSQQHQQYSIQM
NPIVSYQKKLDVPPLCTTRLQPTRHQMKNVVMSIMNEPRGEVVVELLKYKAKSDEYRVME
VCRISNDGLRIVIYQPNKGKGIRMQNQPPATPNDGVDFIYSYENLPEKHFKKYLYAHRFI
QMVRAKTPKVTFYSELAKCQLMETLEDFEMILYNSNGTVTKRKGTSCEFHIQLDTNINEQ
QQPTHDQQKITQHAEECYQHCVNIEKLLSLTSLNQPCFPIIIGRRPSENNLDDGKNVLQD
HQNTFNNYISSSQTPLRTPKINMPSFSLEQTPSPIVKPSISNANNYRYPETPTSSPQYHN
QHHKMTSTTIPGIGHATLLSDGTFEINYFDGSRIIVLTEQQGSGIVYSASNIASSIRYHA
NDLMPEVVKSKFNQLPNILSHLKPRDVGFITSTPLQHQEYNPVFHSNRLNHMKFMR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g13575.t1 | CDD | cd13114 | POLO_box_Plk4_1 | 368 | 485 | 8.95645E-47 |
| 15 | g13575.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 3 | 356 | 3.0E-91 |
| 12 | g13575.t1 | Gene3D | G3DSA:3.30.1120.120 | - | 364 | 487 | 2.7E-43 |
| 14 | g13575.t1 | Gene3D | G3DSA:3.30.1120.130 | - | 488 | 591 | 2.7E-25 |
| 13 | g13575.t1 | Gene3D | G3DSA:3.30.1120.30 | - | 663 | 747 | 1.7E-14 |
| 5 | g13575.t1 | PANTHER | PTHR24345:SF89 | SERINE/THREONINE-PROTEIN KINASE PLK4 | 8 | 298 | 4.5E-153 |
| 7 | g13575.t1 | PANTHER | PTHR24345 | SERINE/THREONINE-PROTEIN KINASE PLK | 8 | 298 | 4.5E-153 |
| 4 | g13575.t1 | PANTHER | PTHR24345:SF89 | SERINE/THREONINE-PROTEIN KINASE PLK4 | 335 | 740 | 4.5E-153 |
| 6 | g13575.t1 | PANTHER | PTHR24345 | SERINE/THREONINE-PROTEIN KINASE PLK | 335 | 740 | 4.5E-153 |
| 2 | g13575.t1 | Pfam | PF00069 | Protein kinase domain | 11 | 263 | 7.3E-68 |
| 3 | g13575.t1 | Pfam | PF18190 | Polo-like Kinase 4 Polo Box 1 | 372 | 484 | 6.4E-35 |
| 1 | g13575.t1 | Pfam | PF18409 | Polo-like Kinase 4 Polo Box 2 | 486 | 586 | 1.8E-24 |
| 11 | g13575.t1 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 17 | 40 | - |
| 10 | g13575.t1 | ProSitePatterns | PS00109 | Tyrosine protein kinases specific active-site signature. | 129 | 141 | - |
| 17 | g13575.t1 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 11 | 263 | 49.969 |
| 16 | g13575.t1 | ProSiteProfiles | PS50078 | POLO box domain profile. | 679 | 736 | 8.781 |
| 8 | g13575.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 8 | 351 | 5.6E-88 |
| 9 | g13575.t1 | SUPERFAMILY | SSF82615 | Polo-box domain | 668 | 742 | 5.1E-10 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005814 | centriole | CC |
| GO:0005524 | ATP binding | MF |
| GO:0005515 | protein binding | MF |
| GO:0004674 | protein serine/threonine kinase activity | MF |
| GO:0004672 | protein kinase activity | MF |
| GO:0007099 | centriole replication | BP |
| GO:0006468 | protein phosphorylation | BP |
KEGG
Orthology
- This transcript has been annotated with K08863 (polo-like kinase 4)
Pathway
- This transcript belongs to the following pathways
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
