Gene loci information

Transcript annotation

  • This transcript has been annotated as Dual specificity mitogen-activated protein kinase kinase 3.

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 g12056 g12056.t4 isoform g12056.t4 20680044 20682001
chr_1 g12056 g12056.t4 exon g12056.t4.exon1 20680044 20680400
chr_1 g12056 g12056.t4 cds g12056.t4.CDS1 20680044 20680400
chr_1 g12056 g12056.t4 exon g12056.t4.exon2 20680462 20680576
chr_1 g12056 g12056.t4 cds g12056.t4.CDS2 20680462 20680576
chr_1 g12056 g12056.t4 exon g12056.t4.exon3 20680637 20680724
chr_1 g12056 g12056.t4 cds g12056.t4.CDS3 20680637 20680724
chr_1 g12056 g12056.t4 exon g12056.t4.exon4 20680785 20680962
chr_1 g12056 g12056.t4 cds g12056.t4.CDS4 20680785 20680962
chr_1 g12056 g12056.t4 exon g12056.t4.exon5 20681021 20681316
chr_1 g12056 g12056.t4 cds g12056.t4.CDS5 20681021 20681290
chr_1 g12056 g12056.t4 exon g12056.t4.exon6 20681885 20682001
chr_1 g12056 g12056.t4 TSS g12056.t4 20682346 20682346
chr_1 g12056 g12056.t4 TTS g12056.t4 NA NA

Sequences

>g12056.t4 Gene=g12056 Length=1151
GCACCCCAAAAATAAAAAATTTTGAAAATTTTTCTTTTAAAAAAATTCATTAGTTCACAT
TTTTGTTTTCATTAAAAAGTGTTTTTATAAAAAATTAATTTTTCAAGGAATATTGAGTAC
TGATTAACATAATACAAAAAGCAATGTCGTCGAAAAAGCCTCGTCCTGGAATGAAATTAG
TAATTACTGAACAAAAGCCGCCACTGGAAGTGCTCTCTCCGCCAAGAAACTTGGATAAGA
AAGCAACGATCACTATTGATGATAAGACTTTCGAAGTTGAAGCTGATGATTTAGAAAAAA
TTGCTGATCTCGGACGAGGAGCTTATGGTGTTGTTGAGAAAATGAGACATATTAAAACTA
ACACAGTGATGGCAGTCAAACGAATTACAGCAACTGTAAATACACAAGAACAGAAACGAT
TACTTATGGATTTGGATATTTCAATGCGCTCAAGTGACTGTCAATTTACTGTGCACTTTT
TTGGCGCCCTATTTCGTGAAGGAGATGTTTGGATTTGTATGGAAGTTATGGAATGTAGTT
TGGATAAATTTTATCCAATTGTCTTTAACAATAATCTTAAGATGCCAGAAGATATATTGG
GTAAAGTGGCAGTTGCAGTCGTAAATGCACTTCATTATCTCCATTCTAAATTACATGTTA
TTCATCGTGATGTAAAGCCATCAAATATTCTTATTAATCGTCGTGGTGAAGTAAAAATGT
GTGACTTTGGTATTTCTGGCTATTTGGTCGATAGTGTTGCTAAAACATTAGATGCTGGCT
GTAAACCATACATGGCACCTGAGCGAATTGATCCACAAGGCAGTGGTGTTTCGAATTATG
ATATTAAGAGCGATGTTTGGTCTTTAGGAATAAGTTTAATTGAAATGGCAACGGGTAAAT
TTCCTTATGCAATTTGGAAAACACCATTTGAACAGCTCAAGCAAGTCGTCACAGAAAAGT
CACCATCTCTGCCACCAGATATGTTTACAAAACCATTTGAAAACTTAATCAATATCTGTC
TTCAAAAAGAATTTACAAAACGTCCTAATTATGAACAGTTACTTGCCAATGATTTTATTG
TCGAACACACAAAGAAAGAAACTGATGTCGCTAAATTTGTTGAAGAAATTTTGGCTCTCG
GAAGCCCATAA

>g12056.t4 Gene=g12056 Length=335
MSSKKPRPGMKLVITEQKPPLEVLSPPRNLDKKATITIDDKTFEVEADDLEKIADLGRGA
YGVVEKMRHIKTNTVMAVKRITATVNTQEQKRLLMDLDISMRSSDCQFTVHFFGALFREG
DVWICMEVMECSLDKFYPIVFNNNLKMPEDILGKVAVAVVNALHYLHSKLHVIHRDVKPS
NILINRRGEVKMCDFGISGYLVDSVAKTLDAGCKPYMAPERIDPQGSGVSNYDIKSDVWS
LGISLIEMATGKFPYAIWKTPFEQLKQVVTEKSPSLPPDMFTKPFENLINICLQKEFTKR
PNYEQLLANDFIVEHTKKETDVAKFVEEILALGSP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g12056.t4 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 41 128 2.7E-37
9 g12056.t4 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 131 332 3.4E-54
2 g12056.t4 PANTHER PTHR48013:SF12 DUAL SPECIFICITY MITOGEN-ACTIVATED PROTEIN KINASE KINASE 6 3 330 1.5E-147
3 g12056.t4 PANTHER PTHR48013 DUAL SPECIFICITY MITOGEN-ACTIVATED PROTEIN KINASE KINASE 5-RELATED 3 330 1.5E-147
1 g12056.t4 Pfam PF00069 Protein kinase domain 51 312 1.6E-51
7 g12056.t4 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 56 79 -
6 g12056.t4 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 172 184 -
10 g12056.t4 ProSiteProfiles PS50011 Protein kinase domain profile. 50 312 39.128
5 g12056.t4 SMART SM00220 serkin_6 50 312 4.9E-62
4 g12056.t4 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 34 315 1.75E-65

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.

Raw TPM values