Gene loci information

Transcript annotation

  • This transcript has been annotated as Serine/threonine-protein kinase PAK 3.

Parent gene

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_3 g2974 g2974.t1 TSS g2974.t1 21663863 21663863
chr_3 g2974 g2974.t1 isoform g2974.t1 21664047 21666436
chr_3 g2974 g2974.t1 exon g2974.t1.exon1 21664047 21664266
chr_3 g2974 g2974.t1 cds g2974.t1.CDS1 21664047 21664266
chr_3 g2974 g2974.t1 exon g2974.t1.exon2 21664448 21665363
chr_3 g2974 g2974.t1 cds g2974.t1.CDS2 21664448 21665363
chr_3 g2974 g2974.t1 exon g2974.t1.exon3 21665606 21665675
chr_3 g2974 g2974.t1 cds g2974.t1.CDS3 21665606 21665675
chr_3 g2974 g2974.t1 exon g2974.t1.exon4 21665786 21665958
chr_3 g2974 g2974.t1 cds g2974.t1.CDS4 21665786 21665958
chr_3 g2974 g2974.t1 exon g2974.t1.exon5 21666025 21666098
chr_3 g2974 g2974.t1 cds g2974.t1.CDS5 21666025 21666098
chr_3 g2974 g2974.t1 exon g2974.t1.exon6 21666165 21666436
chr_3 g2974 g2974.t1 cds g2974.t1.CDS6 21666165 21666436
chr_3 g2974 g2974.t1 TTS g2974.t1 21667327 21667327

Sequences

>g2974.t1 Gene=g2974 Length=1725
ATGAGTTTCATCGAAAAAATTTTTCGTAAAGATAAACGTAAAGATGGGAATAGAGAGAAA
GAGCACGAAATGCAAATCGGATTGCCCACCAACGTCGTACGTGGACTGCATGTTAGTAAA
AATCAAGTGACGGGTGATCTCGAAGGACTGCCAAAACAATGGCAAAAAATGATAAAGACA
CTGATAACGGAAGCTGAGCAGAATGAGAACCCAGATGCAGCATATCAGGTGGTGACATTT
TACAATTACTCAATAAAAAAGAAAGACAATATAGAGCCATTTAAACCATTCATCACTGAG
GAAGCGATAGTTGAAGAATCTGCTGAAATTGAAGATTTTTTAATTTCAAAAAATGCACAT
AATTCAGAAGATTCATTCAATGATGAAACAAGTAGCAATGAAGAACATAATAATATTAAA
ACAACTGATCCACCACAAGTCTATGAACCTAAAGATAGCTCACCGCCTCTTTTACCTCCT
AAGAAAAATATAACTGATTCGAAACCGATTAAACCACCAATTCTTGGTCCTAAACCAAAT
GTACCGATTAAGCCATCACGAAACCTTTCTACGAAAATGAAAACACACAAACCAATGGAA
GATTTAACACACATCGATAAAGAATCAGTTAATGATAGTAATGATAATAATATCGATCAT
ACATACACAAATACAAAATCAACGATAGTTGCCAATAAAAGTATTGATAAAGAACTTGGT
AGTGATAACGAAAATTTCTCTAACAACAATACATTTATCGTGCATCCAAAAGAAACAGAC
AGTGATGAGCCAATTTTGAGAGCAAAAAAACCACAACGTGTAACGAAGACTGACGAGGAA
GTGTATGCTGAATTGAAAAGCATATGCAATTTGTCAGATCCATTAGATAAATATAAGAAA
ATAAAGGAAGTGGGTAAGGGAGCGAGCGGTGTTGTGTTCATAGCGCAAGAATTAGGAACA
GATAAACAAGTTGCCATCAAGACAATTGATTTAAAGAATCAGTCTTCCAAAGAGCTCATT
CTTAATGAGATTCGCGTGCTAAAAGATTTCAATCACAGAAACTTAGTCAATTTCCTCGAT
GCCTATTATTTGGAAGAGACAGATTGTTTATGGGTCGTTTTAGAATATATGAATGGTGGC
CCATTAACTGATGTTGTTACAGAAACAGTCATGAATGAGCGACAAATTTCTGCAGTCTGT
CGCGAGGTGCTTAATGCAATAAGTTTTCTTCATCAGAAAGGAATTATTCATAGAGATATT
AAGTCAGATAATGTGCTATTGGGATTAGATGGTAAAGTGAAAGTCACTGATTTTGGATTT
TGTGCAAATATTGAGGAGCATGAGAAACGTGAAACGATGGTCGGTACACCTTATTGGATG
GCACCAGAAGTTGTAACGAGGAAACAATATGGCAAGAAAGTTGATGTCTGGTCACTTGGA
ATTATGGCAATAGAAATGATTGAAGGCCAGCCACCATATTTAAATCAAGCGCCTCTTCGA
GCTCTTTATCTAATTGCAGCCAATGGCAGGCCGGAAATAAAATCTTGGGATAAATTATCA
GAGCCATTAAAAGATTTTCTCAACTGTTGCCTCGAAGTTGAAGTCGATAGACGAGCGTCT
GCTCGTGAACTTTTAGATCATCCTTTCCTCAAAGATTGTGCAGAACTCAAGAGTTTAACG
CCACTTATTAGAGCCGCAAGACGAATTTTAAACAGGGATAAGTAA

>g2974.t1 Gene=g2974 Length=574
MSFIEKIFRKDKRKDGNREKEHEMQIGLPTNVVRGLHVSKNQVTGDLEGLPKQWQKMIKT
LITEAEQNENPDAAYQVVTFYNYSIKKKDNIEPFKPFITEEAIVEESAEIEDFLISKNAH
NSEDSFNDETSSNEEHNNIKTTDPPQVYEPKDSSPPLLPPKKNITDSKPIKPPILGPKPN
VPIKPSRNLSTKMKTHKPMEDLTHIDKESVNDSNDNNIDHTYTNTKSTIVANKSIDKELG
SDNENFSNNNTFIVHPKETDSDEPILRAKKPQRVTKTDEEVYAELKSICNLSDPLDKYKK
IKEVGKGASGVVFIAQELGTDKQVAIKTIDLKNQSSKELILNEIRVLKDFNHRNLVNFLD
AYYLEETDCLWVVLEYMNGGPLTDVVTETVMNERQISAVCREVLNAISFLHQKGIIHRDI
KSDNVLLGLDGKVKVTDFGFCANIEEHEKRETMVGTPYWMAPEVVTRKQYGKKVDVWSLG
IMAIEMIEGQPPYLNQAPLRALYLIAANGRPEIKSWDKLSEPLKDFLNCCLEVEVDRRAS
ARELLDHPFLKDCAELKSLTPLIRAARRILNRDK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g2974.t1 Gene3D G3DSA:3.90.810.10 - 21 95 8.7E-17
6 g2974.t1 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 239 376 1.5E-34
7 g2974.t1 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 377 574 6.9E-71
13 g2974.t1 MobiDBLite mobidb-lite consensus disorder prediction 121 195 -
14 g2974.t1 MobiDBLite mobidb-lite consensus disorder prediction 121 136 -
3 g2974.t1 PANTHER PTHR48015:SF8 NON-SPECIFIC SERINE/THREONINE PROTEIN KINASE 18 573 5.5E-227
4 g2974.t1 PANTHER PTHR48015 SERINE/THREONINE-PROTEIN KINASE TAO 18 573 5.5E-227
1 g2974.t1 Pfam PF00786 P21-Rho-binding domain 25 82 2.8E-14
2 g2974.t1 Pfam PF00069 Protein kinase domain 298 550 7.7E-72
10 g2974.t1 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 304 327 -
9 g2974.t1 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 415 427 -
15 g2974.t1 ProSiteProfiles PS50011 Protein kinase domain profile. 298 550 51.029
11 g2974.t1 SMART SM00285 PBD_5 26 61 6.9E-4
12 g2974.t1 SMART SM00220 serkin_6 298 550 6.7E-94
5 g2974.t1 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 289 555 1.19E-83

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:0005524 ATP binding MF
GO:0004672 protein kinase activity MF
GO:0006468 protein phosphorylation BP

KEGG

Orthology

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.

Raw TPM values