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.t16 TSS g12287.t16 22169311 22169311
chr_1 g12287 g12287.t16 isoform g12287.t16 22169830 22171372
chr_1 g12287 g12287.t16 exon g12287.t16.exon1 22169830 22170044
chr_1 g12287 g12287.t16 exon g12287.t16.exon2 22170108 22170294
chr_1 g12287 g12287.t16 exon g12287.t16.exon3 22170545 22171372
chr_1 g12287 g12287.t16 cds g12287.t16.CDS1 22170622 22171371
chr_1 g12287 g12287.t16 TTS g12287.t16 NA NA

Sequences

>g12287.t16 Gene=g12287 Length=1230
GTCAACTTTACTGTCGACGAAATCCGTGCTATGATGGACAAGAAGAAGAACATCCGTAAT
ATGTCTGTCATTGCTCATGTCGATCACGGAAAATCTACTTTAACTGATTCGTTGGTTTCA
AAAGCTGGTATTATTGCTGGTGCAAAAGCTGGTGAAACAAGATTCACAGACACACGCAAG
GATGAACAAGAAAGATGTATCACAATTAAGTCAACTGCTATCTCTATGTTCTTTGAGTTA
GAAGACAAAGATTTGGTTTTCATTACAAATCCTGATCAACGTGACAAAGAAGAAAAAGGT
TTCTTGATTAATTTGATTGACTCACCCGGTCACGTTGATTTCTCATCAGAAGTCACAGCC
GCTCTTCGTGTTACTGATGGTGCTCTTGTTGTTGTCGATTGCGTGTTTGTGTACAAACTG
AGACTGTATTGCGTCAAGCTATTGCCGAACGTATTAAGCCAGTTTTGTTCATGAACAAGA
TGGACCGTGCTTTGTTGGAATTGCAATTGGATGCTGAAGATTTGTACCAAACATTCCAAC
GTATCGTCGAAAACGTCAACGTTATCATCGCCACTTACAGCGATGACGATGGTCCAATGG
GAGAAGTTCGTGTTGATCCATCAAAGGGTTCAGTCGGTTTCGGTTCCGGCTTGCACGGAT
GGGCTTTCACTCTCAAACAATTTTCGGAAATGTATGCAGCTAAATTCAAGATCGATGTCG
TTAAACTCATGAATCGCTTATGGGGTGAAAATTTCTTCAATGCAAAGACCAAGAAATGGG
CAAAGACAAAGGACGATGATAACAAGCGTTCATTTGTCATGTATGTATTGGATCCAATTT
ATAAGGTATTCGATGTCATTATGAATTACAAGAAAGAAGAAATTCCTGGCTTATTGGAGA
AAATCGGAGTCACACTCAAGCACGAAGACAAAGATAAGGATGGTAAACAATTATTGAAAG
TTGTCATGCGCTCATGGTTGCCAGCTGGTGAAGCTTTACTTCAAATGATTGCTATTCACT
TGCCTTCACCAGTCGTCGCTCAAAAATACCGTATGGAAATGTTGTATGAGGGACCACTCG
ATGACGAGGCTGCCGTTGCTGTCAAGAACTGCGATCCAAATGGTCCATTGATGATGTACG
TCTCAAAAATGGTACCAACCAGTGACAAGGGTCGTTTCTATGCTTTCGGACGTGTGTTCT
CCGGAAAAGTTCAAACTGGTCAAAAATGCC

>g12287.t16 Gene=g12287 Length=250
MDRALLELQLDAEDLYQTFQRIVENVNVIIATYSDDDGPMGEVRVDPSKGSVGFGSGLHG
WAFTLKQFSEMYAAKFKIDVVKLMNRLWGENFFNAKTKKWAKTKDDDNKRSFVMYVLDPI
YKVFDVIMNYKKEEIPGLLEKIGVTLKHEDKDKDGKQLLKVVMRSWLPAGEALLQMIAIH
LPSPVVAQKYRMEMLYEGPLDDEAAVAVKNCDPNGPLMMYVSKMVPTSDKGRFYAFGRVF
SGKVQTGQKC

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g12287.t16 Gene3D G3DSA:3.90.1430.10 Yeast translation eEF2 (G’ domain) 65 167 0
5 g12287.t16 Gene3D G3DSA:2.40.30.10 Translation factors 184 250 0
1 g12287.t16 PANTHER PTHR42908:SF29 EUKARYOTIC TRANSLATION ELONGATION FACTOR 2A, TANDEM DUPLICATE 1-RELATED 1 249 0
2 g12287.t16 PANTHER PTHR42908 TRANSLATION ELONGATION FACTOR-RELATED 1 249 0
3 g12287.t16 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 1 182 0
4 g12287.t16 SUPERFAMILY SSF50447 Translation proteins 183 249 0

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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