Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Eukaryotic translation initiation factor 2 subunit 1.

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_2 g7321 g7321.t4 TTS g7321.t4 22940445 22940445
chr_2 g7321 g7321.t4 isoform g7321.t4 22940724 22941978
chr_2 g7321 g7321.t4 exon g7321.t4.exon1 22940724 22940909
chr_2 g7321 g7321.t4 cds g7321.t4.CDS1 22940724 22940909
chr_2 g7321 g7321.t4 exon g7321.t4.exon2 22940971 22941086
chr_2 g7321 g7321.t4 cds g7321.t4.CDS2 22940971 22941086
chr_2 g7321 g7321.t4 exon g7321.t4.exon3 22941156 22941536
chr_2 g7321 g7321.t4 cds g7321.t4.CDS3 22941156 22941297
chr_2 g7321 g7321.t4 exon g7321.t4.exon4 22941669 22941871
chr_2 g7321 g7321.t4 exon g7321.t4.exon5 22941937 22941978
chr_2 g7321 g7321.t4 TSS g7321.t4 22942380 22942380

Sequences

>g7321.t4 Gene=g7321 Length=928
ATGGTTTTAACGTGTCGCTTTTATAAGCAAAAATACCCGGAAGTGGAAGATGTTGTGATG
GTAAATGTGAGATCAATAGCTGAAATGGGTGCCTACGTTCATTTATTAGAATACAATAAT
ATTGAGGGTATGATTCTACTATCAGAATTATCAAGAAGACGTATTCGTTCCATCAATAAG
CTCATTCGAGTTGGAAAAACTGAACCAGTTGTTGTTATTCGTGTTGATAAAGAAAAGGGT
AAGTTTGAGCTCAATTTTGCGGCATGTCGCAGAACTTCTCAAATACGATACTGATGAGCA
GTTAGAAGATTTATATCAAAAGACTGCATGGCATTTCGAGGAGAAGCATAAAAATAAAAC
AGCGTCCTATGACATTTTTAAGCAAGCAGTTACGGAACCATCGCTATTGGATGAATGCAA
TCTAGACGAAAATACAAAGAATGTGCTTTTGACGAATATCAAAAGGAAATTAACTTCACA
AGCAATGAAAATTCGTGCAGACATTGAATGTGCATGTTACGGATATGAGGGCATTGATGC
TGTTAAACAAGCTTTGCGTGCTGGTCTTGAAACATCAACTGAAGATATTCCAATTAAAAT
CAATTTGATTGCGCCGCCCATTTATGTCATAACGACATCGACTCCTGAAAAAAATGATGG
TCTTAAGGCTCTTGAAAATGCCATAGATAAAATCAAGTCTACAATTGAGAAGCTTGACGG
ACATTTTGCTATTCAAATGGCGCCTAAAGTTGTTACTGCAATTGATGAAGCTGATTTAGC
AAGACGAATGGAACGCGCTGAAATGGAAAATGCAGAAGTTTCAGGAGATGAAGATGAAAG
TGAAGAGGAAGAAGGTATGAAATTCGATGCTGATGAGAATGATACAGGTGACAAAAATTC
AGACAAATCAGGTTCTGACGATGAATAA

>g7321.t4 Gene=g7321 Length=147
MKIRADIECACYGYEGIDAVKQALRAGLETSTEDIPIKINLIAPPIYVITTSTPEKNDGL
KALENAIDKIKSTIEKLDGHFAIQMAPKVVTAIDEADLARRMERAEMENAEVSGDEDESE
EEEGMKFDADENDTGDKNSDKSGSDDE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g7321.t4 Coils Coil Coil 60 80 -
8 g7321.t4 Coils Coil Coil 102 122 -
7 g7321.t4 Gene3D G3DSA:3.30.70.1130 EIF_2_alpha 1 147 3.1E-44
6 g7321.t4 MobiDBLite mobidb-lite consensus disorder prediction 102 147 -
4 g7321.t4 MobiDBLite mobidb-lite consensus disorder prediction 110 129 -
5 g7321.t4 MobiDBLite mobidb-lite consensus disorder prediction 130 147 -
2 g7321.t4 PANTHER PTHR10602 EUKARYOTIC TRANSLATION INITIATION FACTOR 2 SUBUNIT 1 1 125 8.5E-42
1 g7321.t4 Pfam PF07541 Eukaryotic translation initiation factor 2 alpha subunit 1 56 1.1E-18
3 g7321.t4 SUPERFAMILY SSF110993 eIF-2-alpha, C-terminal domain 1 115 5.75E-41

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:0003743 translation initiation factor activity MF
GO:0003723 RNA 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