Gene loci information

Transcript annotation

  • This transcript has been annotated as Dual specificity mitogen-activated protein kinase kinase 4.

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 g3883 g3883.t7 TSS g3883.t7 28611026 28611026
chr_3 g3883 g3883.t7 isoform g3883.t7 28611835 28612745
chr_3 g3883 g3883.t7 exon g3883.t7.exon1 28611835 28612431
chr_3 g3883 g3883.t7 cds g3883.t7.CDS1 28611839 28612431
chr_3 g3883 g3883.t7 exon g3883.t7.exon2 28612493 28612638
chr_3 g3883 g3883.t7 cds g3883.t7.CDS2 28612493 28612638
chr_3 g3883 g3883.t7 exon g3883.t7.exon3 28612693 28612745
chr_3 g3883 g3883.t7 cds g3883.t7.CDS3 28612693 28612745
chr_3 g3883 g3883.t7 TTS g3883.t7 28613023 28613023

Sequences

>g3883.t7 Gene=g3883 Length=796
AGCAATGAAATCGTCTAATGATTGCAAATATATTGTACAATTTTATGGAGCTATTTTTAA
AGAAGGAGATTGTTGGATTTGTATGGAAATTCTTTCTGTTTCCCTTGATAAATTCTATAA
GTATGTCTATGAGAGACAAAATCAACGCATACCTGAAAACATTCTTGGACAAATAACCGT
TGCAACAGTAAACGCGTTAAATTATTTAAAAGAAAAATTAAAAATCATCCATAGAGATGT
TAAACCGAGCAACATTCTGCTTGCTGAGCGTGGTGATATCAAGCTCTGTGATTTCGGTAT
TTCCGGACAATTGATTGATTCAATTGCAAGAACTAAAGACGCTGGTTGTCGCCCCTATAT
GGCACCTGAGAGAATCGATCCAGAATTTTCTCATAAAGGCTATGATGTTCGATCTGATGT
CTGGTCACTTGGAATTACTTTAATGGAAGTTGCGACTGGAAAATTTCCTTATCCTAGCAA
ATGGGCCTCAGTTTTTGAGCAATTATATCAAGTTGTGCAAGGCCCACCTCCACAATTAAC
TCGCCAATATAATGGATTTGAATTTACTGAAGAATTTTGTAATTTTGTTAATACTTGTCT
GATAAAAGAGGAAAAGAATCGTCCAAAATATCAAACATTATTGCAACATAAATTTATTCA
ATTGCATGAAAAATTGCAGCCTTATGTTCATCCCGAAGTGGCAAGTTATATTTCAAATGT
GTTAGAATCTATGTTCAATAATGGTATTACACAATTCACAACAGATCAAGTTGTTGCTGG
TGCAGTTTGCTGGTAA

>g3883.t7 Gene=g3883 Length=263
MKSSNDCKYIVQFYGAIFKEGDCWICMEILSVSLDKFYKYVYERQNQRIPENILGQITVA
TVNALNYLKEKLKIIHRDVKPSNILLAERGDIKLCDFGISGQLIDSIARTKDAGCRPYMA
PERIDPEFSHKGYDVRSDVWSLGITLMEVATGKFPYPSKWASVFEQLYQVVQGPPPQLTR
QYNGFEFTEEFCNFVNTCLIKEEKNRPKYQTLLQHKFIQLHEKLQPYVHPEVASYISNVL
ESMFNNGITQFTTDQVVAGAVCW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g3883.t7 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 1 29 6.7E-10
8 g3883.t7 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 31 241 1.3E-55
2 g3883.t7 PANTHER PTHR48013 DUAL SPECIFICITY MITOGEN-ACTIVATED PROTEIN KINASE KINASE 5-RELATED 2 249 1.0E-125
3 g3883.t7 PANTHER PTHR48013:SF15 DUAL SPECIFICITY MITOGEN-ACTIVATED PROTEIN KINASE KINASE 4 2 249 1.0E-125
1 g3883.t7 Pfam PF00069 Protein kinase domain 2 218 1.9E-43
6 g3883.t7 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 74 86 -
9 g3883.t7 ProSiteProfiles PS50011 Protein kinase domain profile. 1 218 34.803
5 g3883.t7 SMART SM00220 serkin_6 1 218 7.2E-33
4 g3883.t7 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 2 241 1.13E-52

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

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