Gene loci information

Transcript annotation

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

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 g8642 g8642.t2 isoform g8642.t2 32004419 32015951
chr_2 g8642 g8642.t2 exon g8642.t2.exon1 32004419 32004499
chr_2 g8642 g8642.t2 cds g8642.t2.CDS1 32004419 32004499
chr_2 g8642 g8642.t2 exon g8642.t2.exon2 32005331 32005504
chr_2 g8642 g8642.t2 cds g8642.t2.CDS2 32005331 32005504
chr_2 g8642 g8642.t2 exon g8642.t2.exon3 32005582 32005871
chr_2 g8642 g8642.t2 cds g8642.t2.CDS3 32005582 32005871
chr_2 g8642 g8642.t2 exon g8642.t2.exon4 32007540 32007708
chr_2 g8642 g8642.t2 cds g8642.t2.CDS4 32007540 32007708
chr_2 g8642 g8642.t2 exon g8642.t2.exon5 32007774 32007911
chr_2 g8642 g8642.t2 cds g8642.t2.CDS5 32007774 32007911
chr_2 g8642 g8642.t2 exon g8642.t2.exon6 32015940 32015951
chr_2 g8642 g8642.t2 cds g8642.t2.CDS6 32015940 32015951
chr_2 g8642 g8642.t2 TSS g8642.t2 32016540 32016540
chr_2 g8642 g8642.t2 TTS g8642.t2 NA NA

Sequences

>g8642.t2 Gene=g8642 Length=864
ATGTCGGATCAGAATGAATACATTAAATATCCAGTTCTGTATGAGCTCAGTCACAAGTAT
TTAAATGACAATCAGCCAGAAGCCAATTTACCTGATAGACTAGAAGAACTCAAAGAGGCC
ATTCGGAAAGAAATTCGAAAAGAGCTAAAGATCAAGGAAGGTGCTGAAAAGTTGCGAGAA
GTAGCAACTGATAGAAGAGCATTATCCGATGTTGCCTCAATTGTAAAAAAAAGCAACACA
AAGCTACAAGAACTCAAGTCTGAACTGCATGAACTCGAGAGCCAAATTATATTGACGCAG
GCAAATAGCAATGGAAAAGACTATCTCAATTCATCTCCGCCTGCAAAGAATTCAAATTCA
GAAACTCAAACTGACAACTCCGAAGCATCTAATGACAAACATTTACAATCACTTGAAAAG
CAGTTGACGATTGAAATGAAAGTCAAAAATGGGACAGAAAACATGATTCAATCAATATCA
CAAAATTATCAAAGTCGTGATAAAAAGCTGCTCGCTGAAGCATATACAATGCTTGAAGAT
TCAAAAGCGAAAATTGAATTCCTTAAATTGAAAATTTTGAAGGTCAAACAGAATCGACAG
ATGAATAAAATATCAGAGAATGGAGAAGTGAGATCGAATGAGCAGCTTGAGACATCATTG
GAAGAACGAATTGAAGAACTACGCCATCGACTAAGAATCGAAGCTGCCGTCGTTGATGGT
GCAAAAAATGTGATTAGGACTCTTCAAAGTACTAAAACAATTGACAAGAAAGCCTTACAA
GAGTTAAAGACTCTCGCGGCGAGAGCTGTTCAGTCACTTGTTACGTTTGTTGAAAATCAG
AAGTTGCCATTTATTCGTACTTAA

>g8642.t2 Gene=g8642 Length=287
MSDQNEYIKYPVLYELSHKYLNDNQPEANLPDRLEELKEAIRKEIRKELKIKEGAEKLRE
VATDRRALSDVASIVKKSNTKLQELKSELHELESQIILTQANSNGKDYLNSSPPAKNSNS
ETQTDNSEASNDKHLQSLEKQLTIEMKVKNGTENMIQSISQNYQSRDKKLLAEAYTMLED
SKAKIEFLKLKILKVKQNRQMNKISENGEVRSNEQLETSLEERIEELRHRLRIEAAVVDG
AKNVIRTLQSTKTIDKKALQELKTLAARAVQSLVTFVENQKLPFIRT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g8642.t2 CDD cd11622 HR1_PKN_1 33 96 6.62447E-21
12 g8642.t2 Coils Coil Coil 75 102 -
14 g8642.t2 Coils Coil Coil 178 198 -
13 g8642.t2 Coils Coil Coil 210 230 -
9 g8642.t2 Gene3D G3DSA:1.10.287.160 HR1 repeat 14 96 3.3E-26
11 g8642.t2 Gene3D G3DSA:1.10.287.160 HR1 repeat 126 205 5.0E-23
10 g8642.t2 Gene3D G3DSA:1.10.287.160 HR1 repeat 215 272 2.8E-13
19 g8642.t2 MobiDBLite mobidb-lite consensus disorder prediction 108 131 -
20 g8642.t2 MobiDBLite mobidb-lite consensus disorder prediction 108 133 -
4 g8642.t2 PANTHER PTHR24356 SERINE/THREONINE-PROTEIN KINASE 27 259 2.2E-18
5 g8642.t2 PANTHER PTHR24356:SF387 - 27 259 2.2E-18
3 g8642.t2 Pfam PF02185 Hr1 repeat 39 95 2.7E-12
2 g8642.t2 Pfam PF02185 Hr1 repeat 135 200 6.0E-14
1 g8642.t2 Pfam PF02185 Hr1 repeat 223 264 1.7E-8
22 g8642.t2 ProSiteProfiles PS51860 REM-1 domain profile. 23 98 22.084
23 g8642.t2 ProSiteProfiles PS51860 REM-1 domain profile. 119 201 19.38
21 g8642.t2 ProSiteProfiles PS51860 REM-1 domain profile. 202 287 8.904
18 g8642.t2 SMART SM00742 hr1_7 36 99 1.7E-15
17 g8642.t2 SMART SM00742 hr1_7 133 202 4.3E-13
16 g8642.t2 SMART SM00742 hr1_7 222 284 0.0038
7 g8642.t2 SUPERFAMILY SSF46585 HR1 repeat 20 95 5.49E-17
8 g8642.t2 SUPERFAMILY SSF46585 HR1 repeat 130 201 4.45E-17
6 g8642.t2 SUPERFAMILY SSF46585 HR1 repeat 217 264 2.35E-11

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:0031267 small GTPase binding MF
GO:0007165 signal transduction BP
GO:0004674 protein serine/threonine kinase activity MF
GO:0006468 protein phosphorylation BP

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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