Gene loci information

Transcript annotation

  • This transcript has been annotated as Elongation factor Tu, mitochondrial.

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 g3703 g3703.t8 TSS g3703.t8 27559298 27559298
chr_3 g3703 g3703.t8 isoform g3703.t8 27559446 27560763
chr_3 g3703 g3703.t8 exon g3703.t8.exon1 27559446 27560014
chr_3 g3703 g3703.t8 exon g3703.t8.exon2 27560072 27560596
chr_3 g3703 g3703.t8 cds g3703.t8.CDS1 27560095 27560596
chr_3 g3703 g3703.t8 exon g3703.t8.exon3 27560672 27560763
chr_3 g3703 g3703.t8 cds g3703.t8.CDS2 27560672 27560763
chr_3 g3703 g3703.t8 TTS g3703.t8 27561360 27561360

Sequences

>g3703.t8 Gene=g3703 Length=1186
ATGTCGGCTTTAGTAGCTGTTAAACAAGCATTATCGCCAGGTGAATAAAATTTGGTTATA
TTTTCTCTATTGTTATTCAATATATTTATCTAATTGTGAAATTTACAGCTCTTCGCTCCA
CATTCAGACAATTTCTGTTAAATACCAATGTTAAGTCATCAGGTTGCATTTCTGTATCGC
CATTTATCATTTCAAAAAGATATTTTGCAGAGAAAAAAGTTTTCCAAAGAAGTAAATCTA
AATTTTATTGTAATAAAGAAGGTTATATATTATAGTTATATATTTTCAGCTAAACCTCAT
TGCAATATTGGCACAATTGGGCATGTAGATCACGGTAAATTTAAAATATTTAAATTACAT
TATATATTACTGATTATTTTAAATTACAGGCAAAACGACATTGACAGCTGCTATAACAAA
AGTATTGGCTGAAAAAGATTTAGCTGAAAGTAAAGCATATTCTGATATAGATAATGCACC
AGAAGAAAAAGCTCGTGGAATCACAATCAATGTAGCTCATATTGAATATCAAACAGATAA
TCGTCATTATGGACATACAGATTGCCCTGGACATGCTGATTATATTAAAAACATGATTAC
GGGTACTGCACAAATGGATGGAGCTATTTTAGTCGTCGCTGCAACGGATGGAGCTATGCC
TCAAACTAGAGAACATCTCTTATTGGCTAAACAAATTGGAGTTAATGATATTGTTGTATT
TATTAATAAAGTAGACGCTGCTGATGCTGAAATGGTTGAACTTGTTGAGATGGAAATTCG
TGAACTCATGACAGAAATGGGCTATGATGGCGATAAAGTTCCTATTATTAAAGGTTCAGC
ATTGTGCGCATTAGAAGAGAAAAATCCAGATATCGGTCAAAAAGCAATTTTGGAACTTCT
TGATACTGTTGATAAGACAATTCCTACTCCAGTTAGAGAGTTAGATAAACCATTCCTATT
ACCTGTTGAAAATGTCTATAGCATTCAAGGTCGCGGTACAGTTGTGTCGGGAAGATTAGA
ACGAGGTGTTTTAAAGAAGGGAGCTGAATGTGAATTTGTTGGATATAACAAAGTATTGAA
ATCAACTGTTACAGGAGTTGAAATGTTCCATCAAATTCTCGAAGAAGCTCAAGCAGGTGA
TCAACTTGGTGCATTAGTCAGAGGAGTGAAGCGTGACGATATTAAA

>g3703.t8 Gene=g3703 Length=198
MITGTAQMDGAILVVAATDGAMPQTREHLLLAKQIGVNDIVVFINKVDAADAEMVELVEM
EIRELMTEMGYDGDKVPIIKGSALCALEEKNPDIGQKAILELLDTVDKTIPTPVRELDKP
FLLPVENVYSIQGRGTVVSGRLERGVLKKGAECEFVGYNKVLKSTVTGVEMFHQILEEAQ
AGDQLGALVRGVKRDDIK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g3703.t8 CDD cd03697 EFTU_II 121 198 0.0000000
9 g3703.t8 Gene3D G3DSA:3.40.50.300 - 1 113 0.0000000
10 g3703.t8 Gene3D G3DSA:2.40.30.10 Translation factors 115 198 0.0000000
3 g3703.t8 PANTHER PTHR43721:SF22 ELONGATION FACTOR TU, MITOCHONDRIAL 1 198 0.0000000
4 g3703.t8 PANTHER PTHR43721 ELONGATION FACTOR TU-RELATED 1 198 0.0000000
6 g3703.t8 PRINTS PR00315 GTP-binding elongation factor signature 3 14 0.0000024
5 g3703.t8 PRINTS PR00315 GTP-binding elongation factor signature 40 49 0.0000024
2 g3703.t8 Pfam PF00009 Elongation factor Tu GTP binding domain 1 111 0.0000000
1 g3703.t8 Pfam PF03144 Elongation factor Tu domain 2 135 197 0.0000000
11 g3703.t8 ProSiteProfiles PS51722 Translational (tr)-type guanine nucleotide-binding (G) domain profile. 1 114 32.9650000
7 g3703.t8 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 1 136 0.0000000
8 g3703.t8 SUPERFAMILY SSF50447 Translation proteins 113 197 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