Gene loci information

Transcript annotation

  • This transcript has been annotated as Dual specificity mitogen-activated protein kinase kinase dSOR1.

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 g2128 g2128.t2 isoform g2128.t2 15353595 15355583
chr_3 g2128 g2128.t2 exon g2128.t2.exon1 15353595 15354077
chr_3 g2128 g2128.t2 exon g2128.t2.exon2 15354158 15354267
chr_3 g2128 g2128.t2 cds g2128.t2.CDS1 15354164 15354267
chr_3 g2128 g2128.t2 exon g2128.t2.exon3 15354335 15354530
chr_3 g2128 g2128.t2 cds g2128.t2.CDS2 15354335 15354530
chr_3 g2128 g2128.t2 exon g2128.t2.exon4 15354588 15354767
chr_3 g2128 g2128.t2 cds g2128.t2.CDS3 15354588 15354767
chr_3 g2128 g2128.t2 exon g2128.t2.exon5 15354826 15355416
chr_3 g2128 g2128.t2 cds g2128.t2.CDS4 15354826 15355416
chr_3 g2128 g2128.t2 exon g2128.t2.exon6 15355476 15355583
chr_3 g2128 g2128.t2 cds g2128.t2.CDS5 15355476 15355583
chr_3 g2128 g2128.t2 TTS g2128.t2 15355983 15355983
chr_3 g2128 g2128.t2 TSS g2128.t2 NA NA

Sequences

>g2128.t2 Gene=g2128 Length=1668
ACTTTTAAAACACAAATGATTTTATTTTATCTTGCCAATATTTCTTTTCTCGATTATTTT
TTTGGGGAACGAACAGTGATGTAGAATATTCAGCTATTTTGAATTTGATCATTTTATAAA
CCGTTTTCTATTCTTTTGGTGAAGCAACAGGTTATTTGATTTTCTTTAAAAAGAATTTTA
AATTTAATTCTATTCTATTGATTAAAAAATTGAAACAATCAGTGCTGAGCACATTTAATG
AAAACATTTAGTGCTCAGCACAATAAACATTATGCGTTGACCGAAAAAACATTAAACATC
GAATGATAAGCTTTAAACATTCCATCTTGACACAAAAACACTCATCTTTAAAATAAAAAA
AAAATTCTCTTAAAAAACAATGTTCTGTATCAGCTTTGAAATTTTTGAGCATGTGGGCAT
GTGACTATATGAAAACAGAAGAAGGAGAAAAAGGCTAGGAGGAGAAGAAAAAAGAGAGAA
AAATCATAAATGAAAAGCAAGAACAAGCCAATTATGTCTAAGAACAAGCTAAATTTGACA
TTGCCTCCGCCTTCTATCGATGCTTCGATCACTCCAGCTTTAGCTTCTGCAGAGAAAAAA
GAATTACTTGGTACAAAAAATAGTATTGATCAATTAACAGAGACTTTAGAAGAACTCGAT
ATGGATGAGAATGCACGCAAAAGGATAAAAGTATTTTTAAATCAAAAAGAGAAAATTGGT
GAACTCTCAGATCAAGATCTTGAAAAATTAGGAGAGTTAGGTTCTGGAAATGGAGGTGTA
GTGATGATGGCACGACACAAACCAACTTCTCTCATAATGGCAAGAAAAATGATTCATCTT
GAAGTAAAGCCAGCTATTAAGAAACAAATTATTCGTGAATTGAAAGTATTGCATGAATGT
AATTTTCCTCATATTGTTGGTTTCTATGGAGCCTTTTATAGTGATGGCGAAATCAGCATT
TGCATGGAGTATATGGACGGTGGTTCACTTGATTTGATTTTAAAACGTGCTGGACGTATA
CATGAGAACATTTTGGGCAAAATAACAGTTGCTGTGTTAAAAGGTTTAACTTATTTACGT
GATAAACATGCCATCATTCATAGAGATGTCAAACCGAGTAATATTTTGGTTAATAGCAGT
GGAGAAATAAAAATTTGTGATTTTGGTGTAAGTGGTCAATTGATTGATTCAATGGCAAAC
TCATTTGTCGGCACACGTAGCTATATGTCACCTGAACGTTTACAAGGAACACATTATTCA
GTTCAATCAGACATTTGGTCCTTAGGCCTCTCATTAGTGGAGATGGCTATAGGAATGTAT
CCAATTCCACCACCTGACATGCAGACACTTGATGCTATTCTCGCAAACGATGCACAATCA
TTAGCAAATCAGACAATTATTGAGCCACGATCGATGGCAATTTTTGAATTATTAGACTAT
ATTGTGAATGAGCCACCACCGAAACTAGAGCATCCTAGTTTCTCGCCCAATTTCAAAGAC
TTTGTAGATAAATGTTTGAAGAAAAATCCTGAAGAACGTGCTGATTTAAAGACATTAATG
GCTCATGATTGGATAAGACATTCTGAAGAAGAAAATGTTGATGTAGCTGGTTGGGTTTGT
CGAACTATGAATTTGCCTCTTACTCCAAAACGCACGATACCACAGTAA

>g2128.t2 Gene=g2128 Length=392
MKSKNKPIMSKNKLNLTLPPPSIDASITPALASAEKKELLGTKNSIDQLTETLEELDMDE
NARKRIKVFLNQKEKIGELSDQDLEKLGELGSGNGGVVMMARHKPTSLIMARKMIHLEVK
PAIKKQIIRELKVLHECNFPHIVGFYGAFYSDGEISICMEYMDGGSLDLILKRAGRIHEN
ILGKITVAVLKGLTYLRDKHAIIHRDVKPSNILVNSSGEIKICDFGVSGQLIDSMANSFV
GTRSYMSPERLQGTHYSVQSDIWSLGLSLVEMAIGMYPIPPPDMQTLDAILANDAQSLAN
QTIIEPRSMAIFELLDYIVNEPPPKLEHPSFSPNFKDFVDKCLKKNPEERADLKTLMAHD
WIRHSEEENVDVAGWVCRTMNLPLTPKRTIPQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g2128.t2 CDD cd06615 PKc_MEK 83 380 0.0
7 g2128.t2 Coils Coil Coil 39 59 -
5 g2128.t2 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 50 163 1.0E-45
6 g2128.t2 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 164 387 1.1E-66
2 g2128.t2 PANTHER PTHR48013:SF19 DUAL SPECIFICITY MITOGEN-ACTIVATED PROTEIN KINASE KINASE DSOR1 9 383 4.1E-189
3 g2128.t2 PANTHER PTHR48013 DUAL SPECIFICITY MITOGEN-ACTIVATED PROTEIN KINASE KINASE 5-RELATED 9 383 4.1E-189
1 g2128.t2 Pfam PF00069 Protein kinase domain 85 362 4.9E-67
9 g2128.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 32 -
10 g2128.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 15 -
11 g2128.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 16 23 -
12 g2128.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 24 32 -
8 g2128.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 33 392 -
16 g2128.t2 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 90 113 -
15 g2128.t2 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 202 214 -
17 g2128.t2 ProSiteProfiles PS50011 Protein kinase domain profile. 84 362 45.785
14 g2128.t2 SMART SM00220 serkin_6 84 362 4.5E-83
4 g2128.t2 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 78 366 6.74E-79

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