Gene loci information

Transcript annotation

  • This transcript has been annotated as Elongation factor 2.

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 g12287 g12287.t20 TSS g12287.t20 22169311 22169311
chr_1 g12287 g12287.t20 isoform g12287.t20 22170108 22171240
chr_1 g12287 g12287.t20 exon g12287.t20.exon1 22170108 22170301
chr_1 g12287 g12287.t20 cds g12287.t20.CDS1 22170269 22170301
chr_1 g12287 g12287.t20 exon g12287.t20.exon2 22170565 22171240
chr_1 g12287 g12287.t20 cds g12287.t20.CDS2 22170565 22171239
chr_1 g12287 g12287.t20 TTS g12287.t20 NA NA

Sequences

>g12287.t20 Gene=g12287 Length=870
TGCTATCTCTATGTTCTTTGAGTTAGAAGACAAAGATTTGGTTTTCATTACAAATCCTGA
TCAACGTGACAAAGAAGAAAAAGGTTTCTTGATTAATTTGATTGACTCACCCGGTCACGT
TGATTTCTCATCAGAAGTCACAGCCGCTCTTCGTGTTACTGATGGTGCTCTTGTTGTTGT
CGATTGCGTATCAGACTGTATTGCGTCAAGCTATTGCCGAACGTATTAAGCCAGTTTTGT
TCATGAACAAGATGGACCGTGCTTTGTTGGAATTGCAATTGGATGCTGAAGATTTGTACC
AAACATTCCAACGTATCGTCGAAAACGTCAACGTTATCATCGCCACTTACAGCGATGACG
ATGGTCCAATGGGAGAAGTTCGTGTTGATCCATCAAAGGGTTCAGTCGGTTTCGGTTCCG
GCTTGCACGGATGGGCTTTCACTCTCAAACAATTTTCGGAAATGTATGCAGCTAAATTCA
AGATCGATGTCGTTAAACTCATGAATCGCTTATGGGGTGAAAATTTCTTCAATGCAAAGA
CCAAGAAATGGGCAAAGACAAAGGACGATGATAACAAGCGTTCATTTGTCATGTATGTAT
TGGATCCAATTTATAAGGTATTCGATGTCATTATGAATTACAAGAAAGAAGAAATTCCTG
GCTTATTGGAGAAAATCGGAGTCACACTCAAGCACGAAGACAAAGATAAGGATGGTAAAC
AATTATTGAAAGTTGTCATGCGCTCATGGTTGCCAGCTGGTGAAGCTTTACTTCAAATGA
TTGCTATTCACTTGCCTTCACCAGTCGTCGCTCAAAAATACCGTATGGAAATGTTGTATG
AGGGACCACTCGATGACGAGGCTGCCGTTG

>g12287.t20 Gene=g12287 Length=236
MVLLLLSIAYQTVLRQAIAERIKPVLFMNKMDRALLELQLDAEDLYQTFQRIVENVNVII
ATYSDDDGPMGEVRVDPSKGSVGFGSGLHGWAFTLKQFSEMYAAKFKIDVVKLMNRLWGE
NFFNAKTKKWAKTKDDDNKRSFVMYVLDPIYKVFDVIMNYKKEEIPGLLEKIGVTLKHED
KDKDGKQLLKVVMRSWLPAGEALLQMIAIHLPSPVVAQKYRMEMLYEGPLDDEAAV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g12287.t20 Gene3D G3DSA:3.40.50.300 - 7 74 4.1E-5
7 g12287.t20 Gene3D G3DSA:3.90.1430.10 Yeast translation eEF2 (G’ domain) 95 197 8.0E-35
2 g12287.t20 PANTHER PTHR42908:SF29 EUKARYOTIC TRANSLATION ELONGATION FACTOR 2A, TANDEM DUPLICATE 1-RELATED 9 236 8.6E-98
3 g12287.t20 PANTHER PTHR42908 TRANSLATION ELONGATION FACTOR-RELATED 9 236 8.6E-98
1 g12287.t20 Pfam PF00009 Elongation factor Tu GTP binding domain 11 212 1.6E-13
9 g12287.t20 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
10 g12287.t20 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
11 g12287.t20 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 14 -
12 g12287.t20 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
8 g12287.t20 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 236 -
4 g12287.t20 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 10 212 6.73E-50
5 g12287.t20 SignalP_EUK SignalP-noTM SignalP-noTM 1 19 -

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:0005525 GTP binding MF
GO:0003924 GTPase activity MF

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. There were no conditions that were differentially expressed