Gene loci information

Transcript annotation

  • This transcript has been annotated as Mitogen-activated protein kinase kinase 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 g11582 g11582.t5 isoform g11582.t5 17321482 17322697
chr_1 g11582 g11582.t5 exon g11582.t5.exon1 17321482 17321648
chr_1 g11582 g11582.t5 cds g11582.t5.CDS1 17321483 17321648
chr_1 g11582 g11582.t5 exon g11582.t5.exon2 17321714 17322242
chr_1 g11582 g11582.t5 cds g11582.t5.CDS2 17321714 17322242
chr_1 g11582 g11582.t5 exon g11582.t5.exon3 17322307 17322497
chr_1 g11582 g11582.t5 cds g11582.t5.CDS3 17322307 17322497
chr_1 g11582 g11582.t5 exon g11582.t5.exon4 17322567 17322697
chr_1 g11582 g11582.t5 cds g11582.t5.CDS4 17322567 17322697
chr_1 g11582 g11582.t5 TSS g11582.t5 17323103 17323103
chr_1 g11582 g11582.t5 TTS g11582.t5 NA NA

Sequences

>g11582.t5 Gene=g11582 Length=1018
ATGTCCGAAATAAATAATGAACTAGTTTATGGAAACTATTCGCTTCTTGACAATCATCAA
GAGTCACCTCTCTATACTGCGAAATATGACTATTCAGCACAAGGTGAAGATGAATTGGAT
TTAAAAGTCGGTCAAATTGTATGGGTTTTATCAAAAGATGAATCAATATCAGGAGATTAT
GGTTGGTGGACTGGAAAAATTGGTGATCGAGTTGGAATATTTCCTGCAAATTATGTTACA
AATGACGATTTAATGCTAAAAGATGCACATCCTAGTGAAATCGATTACGATGAATTGGAT
GTAAAAGAAGTTATTGGAGCTGGGGGTTTTGGTGAAGTAAAGAGAGCTTTTTTTGCTGAT
GATTTAGTTGCTGTTAAAGAAGCTCGTCATAATCCGGAACTTGATTATAATGTAACACGA
CAAAATGTTTTACAAGAAGCAAAGCTTTTTTGGACTCTTAAACATCCAAATATTGTAACA
CTTCGTGGAGTTTGTCTGAAACCTCCAAAATTTTGTCTTGTCATGGAATATGCAAGAGGT
GGATCTTTAAATAGAATACTGTCGTCTAGTAGAAGAATTCCACCTGATGTTCTTATTGAT
TGGGCTATACAAATCTGTCGAGGAATGACTTATCTTCATAATGGCGCACCTATATCTGTA
ATTCATCGCGATTTAAAAAGTTCAAATGTACTAATAAGTGAATCAATTGATGACGGTGAT
TTACGAGGAAAAACATTAAAAATAACCGATTTTGGTTTAGCTAGAGAAGCATATAACACA
ACCAGAATGTCAGCAGCCGGAACTTATGCTTGGATGCCTCCTGAAGTTATTAAAGCTGGC
ACATATTCTAAAGCATCTGATGTTTGGAGTTATGGTGTGCTTTTATGGGAGCTTTTAACG
GGAGAGATTCCCTATAAAGGATTCGATTCACTTTCCGTAGCATATGGTGTAGCTATCAAT
ACTTTGTCGCTTCCAATTCCAAAAACATGTCCTCAGGCATGGGGAAATTTGATGAAAT

>g11582.t5 Gene=g11582 Length=339
MSEINNELVYGNYSLLDNHQESPLYTAKYDYSAQGEDELDLKVGQIVWVLSKDESISGDY
GWWTGKIGDRVGIFPANYVTNDDLMLKDAHPSEIDYDELDVKEVIGAGGFGEVKRAFFAD
DLVAVKEARHNPELDYNVTRQNVLQEAKLFWTLKHPNIVTLRGVCLKPPKFCLVMEYARG
GSLNRILSSSRRIPPDVLIDWAIQICRGMTYLHNGAPISVIHRDLKSSNVLISESIDDGD
LRGKTLKITDFGLAREAYNTTRMSAAGTYAWMPPEVIKAGTYSKASDVWSYGVLLWELLT
GEIPYKGFDSLSVAYGVAINTLSLPIPKTCPQAWGNLMK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g11582.t5 Gene3D G3DSA:2.30.30.40 SH3 Domains 20 83 1.4E-20
16 g11582.t5 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 90 179 7.8E-27
18 g11582.t5 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 180 339 3.5E-52
3 g11582.t5 PANTHER PTHR44329 SERINE/THREONINE-PROTEIN KINASE TNNI3K-RELATED 19 338 3.7E-160
4 g11582.t5 PANTHER PTHR44329:SF35 MITOGEN-ACTIVATED PROTEIN KINASE KINASE KINASE 9 19 338 3.7E-160
10 g11582.t5 PRINTS PR00452 SH3 domain signature 23 33 3.0E-8
12 g11582.t5 PRINTS PR00452 SH3 domain signature 37 52 3.0E-8
13 g11582.t5 PRINTS PR00452 SH3 domain signature 59 68 3.0E-8
11 g11582.t5 PRINTS PR00452 SH3 domain signature 70 82 3.0E-8
9 g11582.t5 PRINTS PR00109 Tyrosine kinase catalytic domain signature 175 188 3.3E-10
7 g11582.t5 PRINTS PR00109 Tyrosine kinase catalytic domain signature 214 232 3.3E-10
5 g11582.t5 PRINTS PR00109 Tyrosine kinase catalytic domain signature 267 277 3.3E-10
6 g11582.t5 PRINTS PR00109 Tyrosine kinase catalytic domain signature 286 308 3.3E-10
8 g11582.t5 PRINTS PR00109 Tyrosine kinase catalytic domain signature 330 339 3.3E-10
1 g11582.t5 Pfam PF00018 SH3 domain 27 76 1.9E-12
2 g11582.t5 Pfam PF07714 Protein tyrosine and serine/threonine kinase 100 339 2.1E-56
20 g11582.t5 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 105 126 -
19 g11582.t5 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 220 232 -
23 g11582.t5 ProSiteProfiles PS50002 Src homology 3 (SH3) domain profile. 20 84 24.882
24 g11582.t5 ProSiteProfiles PS50011 Protein kinase domain profile. 99 339 41.092
21 g11582.t5 SMART SM00326 SH3_2 23 83 1.1E-18
22 g11582.t5 SMART SM00220 serkin_6 99 339 3.3E-49
15 g11582.t5 SUPERFAMILY SSF50044 SH3-domain 22 84 3.15E-20
14 g11582.t5 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 84 338 3.64E-69

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:0005515 protein binding MF
GO:0004672 protein 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