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.t5 TSS g12287.t5 22169311 22169311
chr_1 g12287 g12287.t5 isoform g12287.t5 22169380 22171138
chr_1 g12287 g12287.t5 exon g12287.t5.exon1 22169380 22169382
chr_1 g12287 g12287.t5 cds g12287.t5.CDS1 22169380 22169382
chr_1 g12287 g12287.t5 exon g12287.t5.exon2 22169830 22170044
chr_1 g12287 g12287.t5 cds g12287.t5.CDS2 22169830 22170044
chr_1 g12287 g12287.t5 exon g12287.t5.exon3 22170108 22170301
chr_1 g12287 g12287.t5 cds g12287.t5.CDS3 22170108 22170301
chr_1 g12287 g12287.t5 exon g12287.t5.exon4 22170545 22171138
chr_1 g12287 g12287.t5 cds g12287.t5.CDS4 22170545 22171137
chr_1 g12287 g12287.t5 TTS g12287.t5 NA NA

Sequences

>g12287.t5 Gene=g12287 Length=1006
ATGGTCAACTTTACTGTCGACGAAATCCGTGCTATGATGGACAAGAAGAAGAACATCCGT
AATATGTCTGTCATTGCTCATGTCGATCACGGAAAATCTACTTTAACTGATTCGTTGGTT
TCAAAAGCTGGTATTATTGCTGGTGCAAAAGCTGGTGAAACAAGATTCACAGACACACGC
AAGGATGAACAAGAAAGATGTATCACAATTAAGTCAACTGCTATCTCTATGTTCTTTGAG
TTAGAAGACAAAGATTTGGTTTTCATTACAAATCCTGATCAACGTGACAAAGAAGAAAAA
GGTTTCTTGATTAATTTGATTGACTCACCCGGTCACGTTGATTTCTCATCAGAAGTCACA
GCCGCTCTTCGTGTTACTGATGGTGCTCTTGTTGTTGTCGATTGCGTATCAGGTGTTTGT
GTACAAACTGAGACTGTATTGCGTCAAGCTATTGCCGAACGTATTAAGCCAGTTTTGTTC
ATGAACAAGATGGACCGTGCTTTGTTGGAATTGCAATTGGATGCTGAAGATTTGTACCAA
ACATTCCAACGTATCGTCGAAAACGTCAACGTTATCATCGCCACTTACAGCGATGACGAT
GGTCCAATGGGAGAAGTTCGTGTTGATCCATCAAAGGGTTCAGTCGGTTTCGGTTCCGGC
TTGCACGGATGGGCTTTCACTCTCAAACAATTTTCGGAAATGTATGCAGCTAAATTCAAG
ATCGATGTCGTTAAACTCATGAATCGCTTATGGGGTGAAAATTTCTTCAATGCAAAGACC
AAGAAATGGGCAAAGACAAAGGACGATGATAACAAGCGTTCATTTGTCATGTATGTATTG
GATCCAATTTATAAGGTATTCGATGTCATTATGAATTACAAGAAAGAAGAAATTCCTGGC
TTATTGGAGAAAATCGGAGTCACACTCAAGCACGAAGACAAAGATAAGGATGGTAAACAA
TTATTGAAAGTTGTCATGCGCTCATGGTTGCCAGCTGGTGAAGCTT

>g12287.t5 Gene=g12287 Length=335
MVNFTVDEIRAMMDKKKNIRNMSVIAHVDHGKSTLTDSLVSKAGIIAGAKAGETRFTDTR
KDEQERCITIKSTAISMFFELEDKDLVFITNPDQRDKEEKGFLINLIDSPGHVDFSSEVT
AALRVTDGALVVVDCVSGVCVQTETVLRQAIAERIKPVLFMNKMDRALLELQLDAEDLYQ
TFQRIVENVNVIIATYSDDDGPMGEVRVDPSKGSVGFGSGLHGWAFTLKQFSEMYAAKFK
IDVVKLMNRLWGENFFNAKTKKWAKTKDDDNKRSFVMYVLDPIYKVFDVIMNYKKEEIPG
LLEKIGVTLKHEDKDKDGKQLLKVVMRSWLPAGEA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g12287.t5 CDD cd01885 EF2 20 236 2.14015E-124
10 g12287.t5 Gene3D G3DSA:3.40.50.300 - 15 200 2.6E-55
11 g12287.t5 Gene3D G3DSA:3.90.1430.10 Yeast translation eEF2 (G’ domain) 228 330 1.7E-34
2 g12287.t5 PANTHER PTHR42908:SF29 EUKARYOTIC TRANSLATION ELONGATION FACTOR 2A, TANDEM DUPLICATE 1-RELATED 1 335 9.8E-162
3 g12287.t5 PANTHER PTHR42908 TRANSLATION ELONGATION FACTOR-RELATED 1 335 9.8E-162
8 g12287.t5 PRINTS PR00315 GTP-binding elongation factor signature 21 34 7.8E-15
7 g12287.t5 PRINTS PR00315 GTP-binding elongation factor signature 65 73 7.8E-15
6 g12287.t5 PRINTS PR00315 GTP-binding elongation factor signature 105 115 7.8E-15
5 g12287.t5 PRINTS PR00315 GTP-binding elongation factor signature 121 132 7.8E-15
4 g12287.t5 PRINTS PR00315 GTP-binding elongation factor signature 157 166 7.8E-15
1 g12287.t5 Pfam PF00009 Elongation factor Tu GTP binding domain 17 245 3.5E-67
13 g12287.t5 ProSitePatterns PS00301 Translational (tr)-type guanine nucleotide-binding (G) domain signature. 58 73 -
15 g12287.t5 ProSiteProfiles PS51722 Translational (tr)-type guanine nucleotide-binding (G) domain profile. 17 243 53.15
9 g12287.t5 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 4 334 7.13E-108
14 g12287.t5 TIGRFAM TIGR00231 small_GTP: small GTP-binding protein domain 19 168 7.4E-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.

Raw TPM values