General information for g1977.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Translation initiation factor eIF-2B subunit alpha.
Parent gene
- The parent gene g1977 is located on chr_3: 14167742..14170363 (- strand)
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 | g1977 | g1977.t6 | TTS | g1977.t6 | 14167622 | 14167622 |
| chr_3 | g1977 | g1977.t6 | isoform | g1977.t6 | 14167742 | 14168784 |
| chr_3 | g1977 | g1977.t6 | exon | g1977.t6.exon1 | 14167742 | 14168012 |
| chr_3 | g1977 | g1977.t6 | cds | g1977.t6.CDS1 | 14167977 | 14168012 |
| chr_3 | g1977 | g1977.t6 | exon | g1977.t6.exon2 | 14168147 | 14168281 |
| chr_3 | g1977 | g1977.t6 | cds | g1977.t6.CDS2 | 14168147 | 14168281 |
| chr_3 | g1977 | g1977.t6 | exon | g1977.t6.exon3 | 14168342 | 14168607 |
| chr_3 | g1977 | g1977.t6 | cds | g1977.t6.CDS3 | 14168342 | 14168607 |
| chr_3 | g1977 | g1977.t6 | exon | g1977.t6.exon4 | 14168670 | 14168784 |
| chr_3 | g1977 | g1977.t6 | cds | g1977.t6.CDS4 | 14168670 | 14168784 |
| chr_3 | g1977 | g1977.t6 | TSS | g1977.t6 | 14168843 | 14168843 |
Sequences
>g1977.t6 Gene=g1977 Length=787
ATGGATAATGCTCAAATCGAAAGATATTTTCTTAATATCGTTAATAACGACAATAATATG
TCGTATGGAATAGCAGCAATTAAAACTTTACTTATGGTTCTCGAGAAAACAACTTTTGTG
ACAATTCAAGAGTTGATTAATACAATAAAATCTGCAATTAAAGTAATAAAAGAAAGTGGA
AAACCAATAACATCAATTAGTTCTTCATGTGAACTTTTCATGTGCTTCATCACTATCTCA
AGTCCAAAAATTGATGAAATGTATGACATGGAAGAAGTAAAGAAAATAATGACTAATAGA
GGACAAAGTTTCTTAAGAAAACTGCTGGCCAGTCGTGAAGTTATTGCTAAAAATTCTGTA
GACTTTATTACAGATGGATGTAGAATCTTGACAATAGGTCGATCAAGAGTAGTGTATGAA
GCATTAAAACTAGCTGCCTCAAAGAACAAACATTTTCGAGTATATGTTACAATGAGCATG
AGTTCCTTTAAAAATGAAAATGAGGGAGAGATGATGAATAGGAACCTTTACTGCTGCATT
GTGTGCCAGTGAAATGAACAAACCATTTTACGTCTTAACTGAAAGTTTCAAATTCTCTCG
AATTTATCCACTCAATCAACGAGATATACCGAGTACTTATAAATTTATACAAAACAGAAA
TGGCGAAAAGGCAAATATTCATCCGTTAGTTGACTTTACACCTCCACTCTTTATAACTCT
CATATTTACTGATCTTGGAATTTTGACACCTTCTGCTGTTAGTGATGAACTTATAAAACT
TTATTAA
>g1977.t6 Gene=g1977 Length=183
MDNAQIERYFLNIVNNDNNMSYGIAAIKTLLMVLEKTTFVTIQELINTIKSAIKVIKESG
KPITSISSSCELFMCFITISSPKIDEMYDMEEVKKIMTNRGQSFLRKLLASREVIAKNSV
DFITDGCRILTIGRSRVVYEALKLAASKNKHFRVYVTMSMSSFKNENEGEMMNRNLYCCI
VCQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g1977.t6 | Gene3D | G3DSA:1.20.120.1070 | - | 1 | 108 | 0 |
| 6 | g1977.t6 | Gene3D | G3DSA:3.40.50.10470 | - | 109 | 182 | 0 |
| 2 | g1977.t6 | PANTHER | PTHR45860:SF1 | TRANSLATION INITIATION FACTOR EIF-2B SUBUNIT ALPHA | 4 | 176 | 0 |
| 3 | g1977.t6 | PANTHER | PTHR45860 | TRANSLATION INITIATION FACTOR EIF-2B SUBUNIT ALPHA | 4 | 176 | 0 |
| 1 | g1977.t6 | Pfam | PF01008 | Initiation factor 2 subunit family | 19 | 165 | 0 |
| 4 | g1977.t6 | SUPERFAMILY | SSF100950 | NagB/RpiA/CoA transferase-like | 8 | 161 | 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: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. There were no conditions that were differentially expressed