Gene loci information

Transcript annotation

  • This transcript has been annotated as Translation 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.t19 TSS g12287.t19 22169311 22169311
chr_1 g12287 g12287.t19 isoform g12287.t19 22170108 22170949
chr_1 g12287 g12287.t19 exon g12287.t19.exon1 22170108 22170301
chr_1 g12287 g12287.t19 cds g12287.t19.CDS1 22170118 22170301
chr_1 g12287 g12287.t19 exon g12287.t19.exon2 22170545 22170949
chr_1 g12287 g12287.t19 cds g12287.t19.CDS2 22170545 22170948
chr_1 g12287 g12287.t19 TTS g12287.t19 NA NA

Sequences

>g12287.t19 Gene=g12287 Length=599
TGCTATCTCTATGTTCTTTGAGTTAGAAGACAAAGATTTGGTTTTCATTACAAATCCTGA
TCAACGTGACAAAGAAGAAAAAGGTTTCTTGATTAATTTGATTGACTCACCCGGTCACGT
TGATTTCTCATCAGAAGTCACAGCCGCTCTTCGTGTTACTGATGGTGCTCTTGTTGTTGT
CGATTGCGTATCAGGTGTTTGTGTACAAACTGAGACTGTATTGCGTCAAGCTATTGCCGA
ACGTATTAAGCCAGTTTTGTTCATGAACAAGATGGACCGTGCTTTGTTGGAATTGCAATT
GGATGCTGAAGATTTGTACCAAACATTCCAACGTATCGTCGAAAACGTCAACGTTATCAT
CGCCACTTACAGCGATGACGATGGTCCAATGGGAGAAGTTCGTGTTGATCCATCAAAGGG
TTCAGTCGGTTTCGGTTCCGGCTTGCACGGATGGGCTTTCACTCTCAAACAATTTTCGGA
AATGTATGCAGCTAAATTCAAGATCGATGTCGTTAAACTCATGAATCGCTTATGGGGTGA
AAATTTCTTCAATGCAAAGACCAAGAAATGGGCAAAGACAAAGGACGATGATAACAAGC

>g12287.t19 Gene=g12287 Length=196
MFFELEDKDLVFITNPDQRDKEEKGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCV
SGVCVQTETVLRQAIAERIKPVLFMNKMDRALLELQLDAEDLYQTFQRIVENVNVIIATY
SDDDGPMGEVRVDPSKGSVGFGSGLHGWAFTLKQFSEMYAAKFKIDVVKLMNRLWGENFF
NAKTKKWAKTKDDDNK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g12287.t19 Gene3D G3DSA:3.40.50.300 - 1 167 0.0000000
2 g12287.t19 PANTHER PTHR42908:SF29 EUKARYOTIC TRANSLATION ELONGATION FACTOR 2A, TANDEM DUPLICATE 1-RELATED 1 192 0.0000000
3 g12287.t19 PANTHER PTHR42908 TRANSLATION ELONGATION FACTOR-RELATED 1 192 0.0000000
5 g12287.t19 PRINTS PR00315 GTP-binding elongation factor signature 29 39 0.0000095
6 g12287.t19 PRINTS PR00315 GTP-binding elongation factor signature 45 56 0.0000095
4 g12287.t19 PRINTS PR00315 GTP-binding elongation factor signature 81 90 0.0000095
1 g12287.t19 Pfam PF00009 Elongation factor Tu GTP binding domain 21 151 0.0000000
10 g12287.t19 ProSiteProfiles PS51722 Translational (tr)-type guanine nucleotide-binding (G) domain profile. 1 196 33.2810000
7 g12287.t19 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 19 191 0.0000000
9 g12287.t19 TIGRFAM TIGR00231 small_GTP: small GTP-binding protein domain 15 92 0.0000000

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.

Raw TPM values