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.t4 TSS g3883.t4 28611026 28611026
chr_3 g3883 g3883.t4 isoform g3883.t4 28611269 28612745
chr_3 g3883 g3883.t4 exon g3883.t4.exon1 28611269 28611357
chr_3 g3883 g3883.t4 cds g3883.t4.CDS1 28611269 28611357
chr_3 g3883 g3883.t4 exon g3883.t4.exon2 28611476 28611564
chr_3 g3883 g3883.t4 cds g3883.t4.CDS2 28611476 28611564
chr_3 g3883 g3883.t4 exon g3883.t4.exon3 28611622 28611767
chr_3 g3883 g3883.t4 cds g3883.t4.CDS3 28611622 28611767
chr_3 g3883 g3883.t4 exon g3883.t4.exon4 28611824 28612431
chr_3 g3883 g3883.t4 cds g3883.t4.CDS4 28611824 28612431
chr_3 g3883 g3883.t4 exon g3883.t4.exon5 28612493 28612638
chr_3 g3883 g3883.t4 cds g3883.t4.CDS5 28612493 28612638
chr_3 g3883 g3883.t4 exon g3883.t4.exon6 28612693 28612745
chr_3 g3883 g3883.t4 cds g3883.t4.CDS6 28612693 28612745
chr_3 g3883 g3883.t4 TTS g3883.t4 28613023 28613023

Sequences

>g3883.t4 Gene=g3883 Length=1131
ATGGATAACGACAGTAAAAAAGCACTTAAATTAGTTTTCCCGAGTCAATCAAGAACAGCC
CATAGGCCCCATCAATCGCTACCTACAAAATTTTTTAGTCGTGATCGATTTCGTAATGCT
CATTCGGATTCTGGAAAATTGCAATTTAGCAGTACTGAGATATATGATTTTACAGCAGAC
GATCTCTTAGACCTTGGTGAAATCGGAAGAGGCGGTTTTGGAAGTGTTAATAAAATGATT
TTTAAGAAAACAGAAAAAGTAATGGCAGTTAAAAGAATACGATGTTCTAATGTTGTTGAT
GAGAAGGAGCAAAAAAGAATTATGGATCTGGATGTAGCAATGAAATCGTCTAATGATTGC
AAATATATTGTACAATTTTATGGAGCTATTTTTAAAGAAGGAGATTGTTGGATTTGTATG
GAAATTCTTTCTGTTTCCCTTGATAAATTCTATAAGTATGTCTATGAGAGACAAAATCAA
CGCATACCTGAAAACATTCTTGGACAAATAACCGTTGCAACAGTAAACGCGTTAAATTAT
TTAAAAGAAAAATTAAAAATCATCCATAGAGATGTTAAACCGAGCAACATTCTGCTTGCT
GAGCGTGGTGATATCAAGCTCTGTGATTTCGGTATTTCCGGACAATTGATTGATTCAATT
GCAAGAACTAAAGACGCTGGTTGTCGCCCCTATATGGCACCTGAGAGAATCGATCCAGAA
TTTTCTCATAAAGGCTATGATGTTCGATCTGATGTCTGGTCACTTGGAATTACTTTAATG
GAAGTTGCGACTGGAAAATTTCCTTATCCTAGCAAATGGGCCTCAGTTTTTGAGCAATTA
TATCAAGTTGTGCAAGGCCCACCTCCACAATTAACTCGCCAATATAATGGATTTGAATTT
ACTGAAGAATTTTGTAATTTTGTTAATACTTGTCTGATAAAAGAGGAAAAGAATCGTCCA
AAATATCAAACATTATTGCAACATAAATTTATTCAATTGCATGAAAAATTGCAGCCTTAT
GTTCATCCCGAAGTGGCAAGTTATATTTCAAATGTGTTAGAATCTATGTTCAATAATGGT
ATTACACAATTCACAACAGATCAAGTTGTTGCTGGTGCAGTTTGCTGGTAA

>g3883.t4 Gene=g3883 Length=376
MDNDSKKALKLVFPSQSRTAHRPHQSLPTKFFSRDRFRNAHSDSGKLQFSSTEIYDFTAD
DLLDLGEIGRGGFGSVNKMIFKKTEKVMAVKRIRCSNVVDEKEQKRIMDLDVAMKSSNDC
KYIVQFYGAIFKEGDCWICMEILSVSLDKFYKYVYERQNQRIPENILGQITVATVNALNY
LKEKLKIIHRDVKPSNILLAERGDIKLCDFGISGQLIDSIARTKDAGCRPYMAPERIDPE
FSHKGYDVRSDVWSLGITLMEVATGKFPYPSKWASVFEQLYQVVQGPPPQLTRQYNGFEF
TEEFCNFVNTCLIKEEKNRPKYQTLLQHKFIQLHEKLQPYVHPEVASYISNVLESMFNNG
ITQFTTDQVVAGAVCW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g3883.t4 CDD cd06616 PKc_MKK4 55 353 0.0
5 g3883.t4 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 40 143 1.1E-33
6 g3883.t4 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 144 353 3.8E-55
2 g3883.t4 PANTHER PTHR48013 DUAL SPECIFICITY MITOGEN-ACTIVATED PROTEIN KINASE KINASE 5-RELATED 24 362 6.1E-159
3 g3883.t4 PANTHER PTHR48013:SF15 DUAL SPECIFICITY MITOGEN-ACTIVATED PROTEIN KINASE KINASE 4 24 362 6.1E-159
1 g3883.t4 Pfam PF00069 Protein kinase domain 65 331 4.5E-54
9 g3883.t4 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 68 91 -
8 g3883.t4 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 187 199 -
11 g3883.t4 ProSiteProfiles PS50011 Protein kinase domain profile. 62 331 39.948
10 g3883.t4 SMART SM00220 serkin_6 62 331 5.6E-63
4 g3883.t4 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 49 346 7.15E-64

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 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. There were no conditions that were differentially expressed