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.t25 isoform g12287.t25 22171244 22172414
chr_1 g12287 g12287.t25 exon g12287.t25.exon1 22171244 22171575
chr_1 g12287 g12287.t25 cds g12287.t25.CDS1 22171273 22171575
chr_1 g12287 g12287.t25 exon g12287.t25.exon2 22171753 22172190
chr_1 g12287 g12287.t25 cds g12287.t25.CDS2 22171753 22172190
chr_1 g12287 g12287.t25 exon g12287.t25.exon3 22172261 22172414
chr_1 g12287 g12287.t25 cds g12287.t25.CDS3 22172261 22172413
chr_1 g12287 g12287.t25 TSS g12287.t25 NA NA
chr_1 g12287 g12287.t25 TTS g12287.t25 NA NA

Sequences

>g12287.t25 Gene=g12287 Length=924
TCAAGAACTGCGATCCAAATGGTCCATTGATGATGTACGTCTCAAAAATGGTACCAACCA
GTGACAAGGGTCGTTTCTATGCTTTCGGACGTGTGTTCTCCGGAAAAGTTCAAACTGGTC
AAAAATGCCGTATAATGGGACCAAATTACACACCTGGCAAGAAGGAAGACTTGTACGAAA
AATCAATTCAACGTACTATTTTGATGATGGGTCGTTATGTTGAAGCCATTGAAGATGTTC
CATGCGGTAACATTTGCGGTTTGGTTGGTGTTGATCAATTCTTGGTCAAGACTGGAACAA
TCACAACATTCAAAGATGCCCATAACATGAAGGTCATGAAATTTTCAGTTTCACCTGTCG
TGCGTGTTGCTGTCGAGCCTAAAAATCCAGCTGATTTGCCCAAACTCGTCGAAGGTCTTA
AGCGTTTGGCTAAATCCGATCCTATGGTACAATGTATCATTGAAGAATCTGGCGAACATA
TTATTGCTGGTGCTGGTGAATTGCATTTGGAAATTTGCTTGAAGGACTTGGAAGAAGATC
ACGCTTGTATCCCATTGAAGAAATCCGATCCAGTTGTATCGTATCGTGAAACAGTCTCTG
ATGAATCATCCATGATGTGTTTATCAAAATCACCAAACAAGCATAATCGTCTTTTCATGA
AGGCCATGCCTATGCCTGATGGTCTTGCTGAAGATATTGATGGAGGTGCAGTTAATGCTC
GTGACGATTTCAAGATTCGTGCACGTTACTTGGCTGAGAAATACGAATGGGATGTTACAG
AAGCTCGTAAGATTTGGTGTTTCGGTCCAGACGGTACAGGTCCAAATGTAATTGTTGACG
TCACTAAGGGTGTACAATATTTGAATGAAATCAAGGACTCTGTTGTTGCTGGCTTCCAAT
GGGCTACAAAAGAAGGTGTCTTGG

>g12287.t25 Gene=g12287 Length=298
MMYVSKMVPTSDKGRFYAFGRVFSGKVQTGQKCRIMGPNYTPGKKEDLYEKSIQRTILMM
GRYVEAIEDVPCGNICGLVGVDQFLVKTGTITTFKDAHNMKVMKFSVSPVVRVAVEPKNP
ADLPKLVEGLKRLAKSDPMVQCIIEESGEHIIAGAGELHLEICLKDLEEDHACIPLKKSD
PVVSYRETVSDESSMMCLSKSPNKHNRLFMKAMPMPDGLAEDIDGGAVNARDDFKIRARY
LAEKYEWDVTEARKIWCFGPDGTGPNVIVDVTKGVQYLNEIKDSVVAGFQWATKEGVL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g12287.t25 CDD cd03700 EF2_snRNP_like_II 1 94 0
13 g12287.t25 CDD cd16261 EF2_snRNP_III 109 180 0
12 g12287.t25 CDD cd01681 aeEF2_snRNP_like_IV 180 298 0
11 g12287.t25 Gene3D G3DSA:2.40.30.10 Translation factors 1 106 0
10 g12287.t25 Gene3D G3DSA:3.30.70.870 Elongation Factor G (Translational Gtpase) 107 184 0
9 g12287.t25 Gene3D G3DSA:3.30.230.10 - 192 298 0
4 g12287.t25 PANTHER PTHR42908:SF24 EUKARYOTIC TRANSLATION ELONGATION FACTOR 2, GENE 2 1 298 0
5 g12287.t25 PANTHER PTHR42908 TRANSLATION ELONGATION FACTOR-RELATED 1 298 0
3 g12287.t25 Pfam PF03144 Elongation factor Tu domain 2 16 91 0
1 g12287.t25 Pfam PF14492 Elongation Factor G, domain III 109 170 0
2 g12287.t25 Pfam PF03764 Elongation factor G, domain IV 228 298 0
8 g12287.t25 SUPERFAMILY SSF50447 Translation proteins 1 103 0
7 g12287.t25 SUPERFAMILY SSF54980 EF-G C-terminal domain-like 106 181 0
6 g12287.t25 SUPERFAMILY SSF54211 Ribosomal protein S5 domain 2-like 183 298 0

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

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