Gene loci information

Transcript annotation

  • This transcript has been annotated as RAC serine/threonine-protein kinase.

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_1 g11018 g11018.t2 isoform g11018.t2 13422172 13423668
chr_1 g11018 g11018.t2 exon g11018.t2.exon1 13422172 13422234
chr_1 g11018 g11018.t2 cds g11018.t2.CDS1 13422172 13422234
chr_1 g11018 g11018.t2 exon g11018.t2.exon2 13422298 13422751
chr_1 g11018 g11018.t2 cds g11018.t2.CDS2 13422298 13422751
chr_1 g11018 g11018.t2 exon g11018.t2.exon3 13422811 13422975
chr_1 g11018 g11018.t2 cds g11018.t2.CDS3 13422811 13422975
chr_1 g11018 g11018.t2 exon g11018.t2.exon4 13423039 13423190
chr_1 g11018 g11018.t2 cds g11018.t2.CDS4 13423039 13423190
chr_1 g11018 g11018.t2 exon g11018.t2.exon5 13423248 13423445
chr_1 g11018 g11018.t2 cds g11018.t2.CDS5 13423248 13423445
chr_1 g11018 g11018.t2 exon g11018.t2.exon6 13423509 13423668
chr_1 g11018 g11018.t2 cds g11018.t2.CDS6 13423509 13423592
chr_1 g11018 g11018.t2 TSS g11018.t2 NA NA
chr_1 g11018 g11018.t2 TTS g11018.t2 NA NA

Sequences

>g11018.t2 Gene=g11018 Length=1192
TGTTGCAAACTGTTTGAGCGAAATTGATCAACAAGAAGAGCCAGTAGCAGAATTGAATGA
TAATGATGATGTAGAAATGGCATCAATTGCGGAAGAAGAAGAATTGGATGAAAAACTCTC
TCATCAAGGAACATCGACAGGAAGTGGAAAGAAGAAAATTACATTAGAGAATTTTGAATT
TTTAAAAGTGCTTGGACGAGGGTCTTATGGCAAAGTAATTTTATGTCGGGAAAAATCTAC
AGCCAAGTTATATGCGATAAAAATCCTTAAAAAGGAAGTCATCATACAAAAGAGTGAAGT
CGAACACACGATGGCTGAAAATCGAGTTTTACGCAAGACAAATCATCCATTTTTAATTTC
ATTGCGTTATTCATTTCGCACTAATGAGCGACTATGTTTTGTCATGCAGTATGTCAACGG
CGGTGAATTATATTTTCATCTGAGAAATGAAAAAATATTTTCAGAAGATCGTACTCGATT
TTATGGAGCAGAAATCATTTCAGCACTTGGATATTTGCATTCGCACAACATTGTTTATCG
TGATGTAAAATTAGAGAATCTTTTACTTGATAAAGATGGTCATATAAAAATTGCAGATTT
TGGTTTATGTAAGGAAGATATTACATATGATAGAACAACGAATACATTTTGTGGAACACC
TGAATATTTGGCACCAGAAATGTTAGAAGACAACGATTATGGATTAGCAGTCGATTGGTG
GGGCACGGGTGTCGTCATGTACGAAATGATGTGTGGTCAATTACCGTTTGATAATCGTGA
CCATGACATTTTATTCAAGCAAATTATGATGGATGATGTAAAGTTTCGACGCCCTGTTTC
TAGTGAAGCAAAATCACTTTTAACTGGATTACTTGAAAAAAGTCCCCAAAAGCGCCTCGG
TGGTGGACCAGATGATGTTCGAGAAATAATGGTGCATCCTTTCTTTGCTAGCATCAATTG
GTATGATTTAGTGAATAAGAAAATTATTCCACCGTTCAAGCCGCAAGTTACCTCAGATAC
TGATACACGCTATTTCGATTCTGAATTTACGGGTGAGAGTGTCGAATTGACACCGCCTGA
TCCAGCTGTTCAATTACAATCAATTCAGGAAGAACCTCATTTTTCTCAATTCAGTTATCA
AGCAATTGCTTCATTTATGAGCAACAATTCTGCATTAGTTTCATTACCATAG

>g11018.t2 Gene=g11018 Length=371
MASIAEEEELDEKLSHQGTSTGSGKKKITLENFEFLKVLGRGSYGKVILCREKSTAKLYA
IKILKKEVIIQKSEVEHTMAENRVLRKTNHPFLISLRYSFRTNERLCFVMQYVNGGELYF
HLRNEKIFSEDRTRFYGAEIISALGYLHSHNIVYRDVKLENLLLDKDGHIKIADFGLCKE
DITYDRTTNTFCGTPEYLAPEMLEDNDYGLAVDWWGTGVVMYEMMCGQLPFDNRDHDILF
KQIMMDDVKFRRPVSSEAKSLLTGLLEKSPQKRLGGGPDDVREIMVHPFFASINWYDLVN
KKIIPPFKPQVTSDTDTRYFDSEFTGESVELTPPDPAVQLQSIQEEPHFSQFSYQAIASF
MSNNSALVSLP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g11018.t2 CDD cd05571 STKc_PKB 37 356 0.0
6 g11018.t2 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 31 327 9.4E-133
7 g11018.t2 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 117 311 9.4E-133
13 g11018.t2 MobiDBLite mobidb-lite consensus disorder prediction 1 21 -
14 g11018.t2 MobiDBLite mobidb-lite consensus disorder prediction 1 15 -
3 g11018.t2 PANTHER PTHR24351:SF209 NON-SPECIFIC SERINE/THREONINE PROTEIN KINASE 7 348 6.6E-192
4 g11018.t2 PANTHER PTHR24351 RIBOSOMAL PROTEIN S6 KINASE 7 348 6.6E-192
2 g11018.t2 Pfam PF00069 Protein kinase domain 33 290 1.7E-74
1 g11018.t2 Pfam PF00433 Protein kinase C terminal domain 311 354 1.8E-8
10 g11018.t2 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 39 62 -
9 g11018.t2 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 152 164 -
16 g11018.t2 ProSiteProfiles PS50011 Protein kinase domain profile. 33 290 48.781
15 g11018.t2 ProSiteProfiles PS51285 AGC-kinase C-terminal domain profile. 291 364 15.709
12 g11018.t2 SMART SM00220 serkin_6 33 290 1.8E-105
11 g11018.t2 SMART SM00133 pkinase_C_6 291 356 1.4E-19
5 g11018.t2 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 28 349 5.26E-97

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:0004674 protein serine/threonine kinase activity 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