General information for g1977.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t5 | TTS | g1977.t5 | 14167622 | 14167622 |
| chr_3 | g1977 | g1977.t5 | isoform | g1977.t5 | 14167742 | 14168784 |
| chr_3 | g1977 | g1977.t5 | exon | g1977.t5.exon1 | 14167742 | 14168281 |
| chr_3 | g1977 | g1977.t5 | cds | g1977.t5.CDS1 | 14167742 | 14168281 |
| chr_3 | g1977 | g1977.t5 | exon | g1977.t5.exon2 | 14168342 | 14168784 |
| chr_3 | g1977 | g1977.t5 | cds | g1977.t5.CDS2 | 14168342 | 14168503 |
| chr_3 | g1977 | g1977.t5 | TSS | g1977.t5 | 14168843 | 14168843 |
Sequences
>g1977.t5 Gene=g1977 Length=983
ATGGATAATGCTCAAATCGAAAGATATTTTCTTAATATCGTTAATAACGACAATAATATG
TCGTATGGAATAGCAGCAATTAAAACTTTACTTATGGTTCTCGAGAAAACAACTTGTAAG
TTAAAAATTAATTTTAAAAAAGTATCTGTTTTGATGAATATATTTTTTCTTTTAAAGTTG
TGACAATTCAAGAGTTGATTAATACAATAAAATCTGCAATTAAAGTAATAAAAGAAAGTG
GAAAACCAATAACATCAATTAGTTCTTCATGTGAACTTTTCATGTGCTTCATCACTATCT
CAAGTCCAAAAATTGATGAAATGTATGACATGGAAGAAGTAAAGAAAATAATGACTAATA
GAGGACAAAGTTTCTTAAGAAAACTGCTGGCCAGTCGTGAAGTTATTGCTAAAAATTCTG
TAGACTTTATTACAGATGGATGTAGAATCTTGACAATAGGTCGATCAAGAGTAGTGTATG
AAGCATTAAAACTAGCTGCCTCAAAGAACAAACATTTTCGAGTATATGTTACAATGAGCA
TGAGTTCCTTTAAAAATGAAAATGAGGGAGAGATGATGGTACAGGATTTAAAGCAATTAA
ACATTGATGCTTCATTAGTGCTTGATGCTGCAATTGGATACACAATGGAAAGCATTGACT
TTGTTTTTTCTGGTGCAGAAGGCGTAATGGAAAATGGTGGGATAATAAATAGAATAGGAA
CCTTTACTGCTGCATTGTGTGCCAGTGAAATGAACAAACCATTTTACGTCTTAACTGAAA
GTTTCAAATTCTCTCGAATTTATCCACTCAATCAACGAGATATACCGAGTACTTATAAAT
TTATACAAAACAGAAATGGCGAAAAGGCAAATATTCATCCGTTAGTTGACTTTACACCTC
CACTCTTTATAACTCTCATATTTACTGATCTTGGAATTTTGACACCTTCTGCTGTTAGTG
ATGAACTTATAAAACTTTATTAA
>g1977.t5 Gene=g1977 Length=233
MCFITISSPKIDEMYDMEEVKKIMTNRGQSFLRKLLASREVIAKNSVDFITDGCRILTIG
RSRVVYEALKLAASKNKHFRVYVTMSMSSFKNENEGEMMVQDLKQLNIDASLVLDAAIGY
TMESIDFVFSGAEGVMENGGIINRIGTFTAALCASEMNKPFYVLTESFKFSRIYPLNQRD
IPSTYKFIQNRNGEKANIHPLVDFTPPLFITLIFTDLGILTPSAVSDELIKLY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g1977.t5 | Gene3D | G3DSA:3.40.50.10470 | - | 37 | 233 | 0 |
| 2 | g1977.t5 | PANTHER | PTHR45860:SF1 | TRANSLATION INITIATION FACTOR EIF-2B SUBUNIT ALPHA | 3 | 233 | 0 |
| 3 | g1977.t5 | PANTHER | PTHR45860 | TRANSLATION INITIATION FACTOR EIF-2B SUBUNIT ALPHA | 3 | 233 | 0 |
| 1 | g1977.t5 | Pfam | PF01008 | Initiation factor 2 subunit family | 11 | 222 | 0 |
| 4 | g1977.t5 | SUPERFAMILY | SSF100950 | NagB/RpiA/CoA transferase-like | 11 | 233 | 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