Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Translation initiation factor eIF-2B subunit delta.

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 g8929 g8929.t8 TTS g8929.t8 33893205 33893205
chr_2 g8929 g8929.t8 isoform g8929.t8 33894051 33895328
chr_2 g8929 g8929.t8 exon g8929.t8.exon1 33894051 33894229
chr_2 g8929 g8929.t8 cds g8929.t8.CDS1 33894053 33894229
chr_2 g8929 g8929.t8 exon g8929.t8.exon2 33894289 33895328
chr_2 g8929 g8929.t8 cds g8929.t8.CDS2 33894289 33895143
chr_2 g8929 g8929.t8 TSS g8929.t8 33895486 33895486

Sequences

>g8929.t8 Gene=g8929 Length=1219
ATGGAAGAAATTGAAATTTCCAAAAAGGTTATAGAAATTAAAATGATTTCGCTATAATTA
TGTAAAATTGCAGAAAATATGTAGTAATTTTAACATGTATTCTTTATTTATAGGCAGCAA
AACGAAGACGTCAACGAGCAAAACGAAAAGATAAAATAAGAGATTCAAAACCAATATTTG
GAGAAATGGAGTCCCAACAAGAAAAATCAAAAGAACAAATTTTGGCAGAAAGAAAAGCCA
AAAAAGCTGCCAAAAAGCAAGGAAATAAAAAAGAAGAAACTCCAATTGTTCCTCCTCTTG
CTGCTGCTGTTTCTGCTCATTCATTGTTGCCAACCAAAACAGAAAATCAATCAACTTCTG
TTAATGTTGACAAAGAGATAAAAGATGTGCAATCAGAAAAGCCTAAAGAAGCTGAAAAAA
AATCTAGAGAAGAAGTTCTGGCCGAACGTGAGACGAAAAAATTAGCGAAACAAGCTGGAA
AGAAAAAGAATGTTGAAGTTGCAAAAGACGACGAGAATAAACAGCAATCAAAGCCAAAAG
AAGTTGAAAAGACAAATTCAGATACAGATCTTGCACAAAAAATGGAAAAACTTCATATAA
CAAATAAAGAAAATGAAAAAGAAAATAAGCCGCAAACACCTGATGATAAAAATCCCGAAA
AAGGTAAACCAATGACTAAAGCAGAACGGCGAGCTCTTCAAGAAGCACAACGTGCAGCAA
AAGCCAAACTAATGGCAGAAAAAAATAAACCTACAACATCCAGTACTGGTAGTAGTACTG
AAAAGAAAATAATGATAGATAAAAAAGAAACAAAGACTAAGGAAACAAGTCATAAAACTG
CATCAATAATTTCACAAAAATCATCTTCATTACATAAAGTGAGACTATTTAAACATCTCT
ACACCGAAAAATGCAATTTTAATATAAAAGTCAATAGTAGTTTTCATCCTGCAATTTTAA
AATTAGGAGCTCAATATGCGAACAATGCTGTTGTAGGATGCAATTCTCGTTGCTATGCTT
TCTTACGTGCTATGCAAATTTTAATTAAAGACTTTACAACACCTTCAGAAAAAGTTTTTT
ATCGAGCTCTTGAAAGTGAAATTCAAAAGTCTGTTGAATTTCTTCACAAGTGCCGACCAC
TCGCTGTATCAGTTTCGAATGCCTTGAAATATATTAAACTTATTATATCGCAAGAAAATT
CATCAGACAGTGATGATGA

>g8929.t8 Gene=g8929 Length=344
MESQQEKSKEQILAERKAKKAAKKQGNKKEETPIVPPLAAAVSAHSLLPTKTENQSTSVN
VDKEIKDVQSEKPKEAEKKSREEVLAERETKKLAKQAGKKKNVEVAKDDENKQQSKPKEV
EKTNSDTDLAQKMEKLHITNKENEKENKPQTPDDKNPEKGKPMTKAERRALQEAQRAAKA
KLMAEKNKPTTSSTGSSTEKKIMIDKKETKTKETSHKTASIISQKSSSLHKVRLFKHLYT
EKCNFNIKVNSSFHPAILKLGAQYANNAVVGCNSRCYAFLRAMQILIKDFTTPSEKVFYR
ALESEIQKSVEFLHKCRPLAVSVSNALKYIKLIISQENSSDSDD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g8929.t8 Coils Coil Coil 168 188 -
5 g8929.t8 MobiDBLite mobidb-lite consensus disorder prediction 1 30 -
7 g8929.t8 MobiDBLite mobidb-lite consensus disorder prediction 1 200 -
6 g8929.t8 MobiDBLite mobidb-lite consensus disorder prediction 47 63 -
8 g8929.t8 MobiDBLite mobidb-lite consensus disorder prediction 64 183 -
2 g8929.t8 PANTHER PTHR10233:SF14 TRANSLATION INITIATION FACTOR EIF-2B SUBUNIT DELTA 142 341 9.1E-28
3 g8929.t8 PANTHER PTHR10233 TRANSLATION INITIATION FACTOR EIF-2B 142 341 9.1E-28
1 g8929.t8 Pfam PF01008 Initiation factor 2 subunit family 269 341 3.6E-8
4 g8929.t8 SUPERFAMILY SSF100950 NagB/RpiA/CoA transferase-like 249 339 5.53E-12

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:0044237 cellular metabolic process BP

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