Gene loci information

Transcript annotation

  • This transcript has been annotated as Serine/threonine-protein kinase PAK 1.

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_2 g6371 g6371.t1 TTS g6371.t1 16676063 16676063
chr_2 g6371 g6371.t1 isoform g6371.t1 16676126 16678059
chr_2 g6371 g6371.t1 exon g6371.t1.exon1 16676126 16676391
chr_2 g6371 g6371.t1 cds g6371.t1.CDS1 16676126 16676391
chr_2 g6371 g6371.t1 exon g6371.t1.exon2 16676444 16676517
chr_2 g6371 g6371.t1 cds g6371.t1.CDS2 16676444 16676517
chr_2 g6371 g6371.t1 exon g6371.t1.exon3 16676576 16676748
chr_2 g6371 g6371.t1 cds g6371.t1.CDS3 16676576 16676748
chr_2 g6371 g6371.t1 exon g6371.t1.exon4 16676803 16676872
chr_2 g6371 g6371.t1 cds g6371.t1.CDS4 16676803 16676872
chr_2 g6371 g6371.t1 exon g6371.t1.exon5 16677074 16677770
chr_2 g6371 g6371.t1 cds g6371.t1.CDS5 16677074 16677770
chr_2 g6371 g6371.t1 exon g6371.t1.exon6 16677852 16678059
chr_2 g6371 g6371.t1 cds g6371.t1.CDS6 16677852 16678059
chr_2 g6371 g6371.t1 TSS g6371.t1 16678098 16678098

Sequences

>g6371.t1 Gene=g6371 Length=1488
ATGAGTTTCTTTGAAAAATTCTTTCGCAAAGATGAAAGTACTGAGAATGAACTTCAAATG
GAAATTAGTTTGCCTAAAAATGTCGTACATACAACTCATGTTAGAAAAAATCAAGTGACA
GGTGATCTCGAAGGATTACCAAATTCGTGGCAAAGAATGGTAAAGTTGCTCATAACGGAA
GCTGAGCAAAAAAAGAATCCAAATGCAGCATATCAGGCTGTTGCATTTTATAACTACACA
ACAGAAAAAAAGGACAATGTAGAGCCATGTAAGCCATTAATAACCGAAGAAGTATTACGT
GAAGAATCAAATAAAATTGAAGATTTTTTAATAACAAAAAATTCTCATAATTTGGGAAAA
TCCGTCAATGATAAAATGACTAGTAATGAGAATGTTACTACAACTGGTCGGAATGGAAAT
CATTTAACAGACATAAATAGAAAATTCACAAACGTTGTTGATAAAAGCATTGACAAAAAA
CTTGATGACGACGATGAAACTTTTCTAAAAGATTATTCTATTATTGAACTTCCAAAAGAA
GAAACTACTAATAATGAACCATTTTTAAGAGACAATAAATCACAACGAATTTCAAAAACC
GATGAGATTGTGTATGCTGAAATGAAGTGCATATGCAATATGTCAAATCCTTTAGAAAAA
TATATGAAAACAAAACTAGTTGGCAAAGGAGCAAGCGGTGTTGTTTTCATAGCTCAAGAA
TTAAAAACAGATAAACAAGTTGCCATTAAGACAATTGATTTAAATGATCAGTCTTCAAAA
AAGCTCATTCTTAATGAAATTCGCGTTTTAAAAAATTTGAATCACAAAAATTTAGTTAAT
TTCCTTGATGCTTATTTTTTGGAAAAAACAGATTTTTTGTGGATCATTTTAGAATATATG
GATGGTGGTCCATTAACTGATGTTGTTATAAACACAATCATGGAAGAAAAACAAATAGCT
GTAGTTTGTCGTGAGGTGCTTAATGCAATAAGTTTTCTTCATCAAAAAGGAATTATTCAT
AGAGATATTAAATCAGATAATGTTCTTTTGGGATTAGATGGAAAAGTTAAAGTCACTGAT
TTTGGATTTTGTGCAAATATTGTAGGAGATGAAAAACGTGAAACAATGGTTGGAACACCT
TATTGGATGGCACCAGAAGTTGTAACGAGAAAACAATATGGAAAGAAAATTGATATTTGG
TCACTTGGAATTATGGCAATAGAAATGATTGAAGGCCAGCCACCATATTTAAATGAAGCA
CCTTTGCGAGCTCTCTATCTGATTGCAGCCAATGGAAGGCCAATAATAAATTCATGGCAT
AAATTATCAGAGCTATTAAAAGATTTTCTCAATTGTTGTCTTGAAGTTGAAGTTGATCAA
CGGTCATCAGCTCAAGAACTTTTAGATCATCTTTTCCTTAAAGATTGTGCAGAACTTAAA
ACTTTAATTCCACTTATTTTAGCCACAAAACGAATTTTAAATAAATAA

>g6371.t1 Gene=g6371 Length=495
MSFFEKFFRKDESTENELQMEISLPKNVVHTTHVRKNQVTGDLEGLPNSWQRMVKLLITE
AEQKKNPNAAYQAVAFYNYTTEKKDNVEPCKPLITEEVLREESNKIEDFLITKNSHNLGK
SVNDKMTSNENVTTTGRNGNHLTDINRKFTNVVDKSIDKKLDDDDETFLKDYSIIELPKE
ETTNNEPFLRDNKSQRISKTDEIVYAEMKCICNMSNPLEKYMKTKLVGKGASGVVFIAQE
LKTDKQVAIKTIDLNDQSSKKLILNEIRVLKNLNHKNLVNFLDAYFLEKTDFLWIILEYM
DGGPLTDVVINTIMEEKQIAVVCREVLNAISFLHQKGIIHRDIKSDNVLLGLDGKVKVTD
FGFCANIVGDEKRETMVGTPYWMAPEVVTRKQYGKKIDIWSLGIMAIEMIEGQPPYLNEA
PLRALYLIAANGRPIINSWHKLSELLKDFLNCCLEVEVDQRSSAQELLDHLFLKDCAELK
TLIPLILATKRILNK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g6371.t1 Gene3D G3DSA:3.90.810.10 - 18 89 1.1E-17
8 g6371.t1 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 166 299 4.2E-30
9 g6371.t1 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 300 495 1.1E-66
3 g6371.t1 PANTHER PTHR48015:SF8 NON-SPECIFIC SERINE/THREONINE PROTEIN KINASE 13 112 2.1E-204
5 g6371.t1 PANTHER PTHR48015 SERINE/THREONINE-PROTEIN KINASE TAO 13 112 2.1E-204
4 g6371.t1 PANTHER PTHR48015:SF8 NON-SPECIFIC SERINE/THREONINE PROTEIN KINASE 192 494 2.1E-204
6 g6371.t1 PANTHER PTHR48015 SERINE/THREONINE-PROTEIN KINASE TAO 192 494 2.1E-204
13 g6371.t1 PIRSF PIRSF000615 TyrPK_CSF1-R 6 204 25.0
11 g6371.t1 PIRSF PIRSF000615 TyrPK_CSF1-R 215 317 0.14
12 g6371.t1 PIRSF PIRSF000615 TyrPK_CSF1-R 312 471 7.3E-13
1 g6371.t1 Pfam PF00786 P21-Rho-binding domain 21 78 2.2E-13
2 g6371.t1 Pfam PF00069 Protein kinase domain 221 473 4.7E-69
15 g6371.t1 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 227 250 -
14 g6371.t1 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 338 350 -
18 g6371.t1 ProSiteProfiles PS50011 Protein kinase domain profile. 221 473 49.559
16 g6371.t1 SMART SM00285 PBD_5 22 57 1.4E-4
17 g6371.t1 SMART SM00220 serkin_6 221 473 3.6E-89
7 g6371.t1 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 211 481 6.34E-84

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 gene does not belong to any 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. There were no conditions that were differentially expressed