General information for g2176.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Eukaryotic translation initiation factor 5.
Parent gene
- The parent gene g2176 is located on chr_3: 15791791..15793413 (- 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 | g2176 | g2176.t10 | isoform | g2176.t10 | 15791791 | 15793413 |
| chr_3 | g2176 | g2176.t10 | exon | g2176.t10.exon1 | 15791791 | 15792313 |
| chr_3 | g2176 | g2176.t10 | cds | g2176.t10.CDS1 | 15791792 | 15792124 |
| chr_3 | g2176 | g2176.t10 | exon | g2176.t10.exon2 | 15792418 | 15792514 |
| chr_3 | g2176 | g2176.t10 | exon | g2176.t10.exon3 | 15792947 | 15793249 |
| chr_3 | g2176 | g2176.t10 | exon | g2176.t10.exon4 | 15793314 | 15793413 |
| chr_3 | g2176 | g2176.t10 | TSS | g2176.t10 | NA | NA |
| chr_3 | g2176 | g2176.t10 | TTS | g2176.t10 | NA | NA |
Sequences
>g2176.t10 Gene=g2176 Length=1023
GAACCCTGTAATTTTAATTCAGACAAAAACAAAATTTTATAAAAATATTTCTTATCTTAA
TTAATTAACAAATTTTGCTTAAATAATCTTTATATTTCATAAAACTTAATAAACAAAATT
TCGCCATTAATTCAAAGATTCGCCGTAGTTTGAAAAGCGACAATATTGAATCAAAAGATA
AGATATTGAGAAAATTTTATTCGTAAAATGTTTTCATCTTATTCTTGTCGTGTGAAAGTT
TTATATCGTCAAAATAATACCAAACGATAGATAAATAACACCAATATTCTATGTAATTGG
AGTTTAAAAGTCACTTTTTGAGGCAATCGAGAAAAATATAAATCATCAAGTTTTTAAGCT
TATCGGGGGATTTTATGAATTTAAAAAACACATTTGAAGGTCAAAAACTTTGATCAGATC
GAACAGCCGATATTTTTAAATTTATCACATCAGAATCCTTTAAAGTGCATGTCAGCGAAT
TTAAATCAGTTGAGTCATAGGACTTCAAAATTTTCAAGCAATCGACATCGGAAATTGCAA
CCATTTAGAAAAACATCGTGAATTAGTCATAAACATTGAGTAAAGTGAACAAGAGTTCTA
TTATTATCATCATCATCACCATCATCAAAGAATATAATACATAATCAAAAAAATAAGGGA
ACGTAATTCAAATTTAATTTGATAGAAGGATGGGGACTTTGAATGTCAATCGTAATGTTA
CGGACTTGTATTATCGCTACAAGATGCCACGTATTTGTGCCAAAGTAGAAGGCAAGGGCA
ATGGCATTAAGACCGTTATTGTCAATATGGCTGAAGTAGCTAAAGCACTCAATCGTCCTG
CTACTTATCCAACTAAATACTTTGGTTGCGAGCTTGGCGCTCAGACTCAATTCGATCATA
AGAATGAACGTTTTATTGTCAATGGCTCGCATGATGCATCAAAATTGCAAGATCTTCTTG
ATGGATTTATTCGCAAATATGTCTTGTGTCCAGAATGCGACAATCCTGAGACCGATTTAA
TCA
>g2176.t10 Gene=g2176 Length=111
MGTLNVNRNVTDLYYRYKMPRICAKVEGKGNGIKTVIVNMAEVAKALNRPATYPTKYFGC
ELGAQTQFDHKNERFIVNGSHDASKLQDLLDGFIRKYVLCPECDNPETDLI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g2176.t10 | Gene3D | G3DSA:3.30.30.50 | Translation initiation factor 2 beta | 23 | 99 | 0 |
| 2 | g2176.t10 | PANTHER | PTHR23001:SF22 | EUKARYOTIC TRANSLATION INITIATION FACTOR 5 | 4 | 110 | 0 |
| 3 | g2176.t10 | PANTHER | PTHR23001 | EUKARYOTIC TRANSLATION INITIATION FACTOR | 4 | 110 | 0 |
| 1 | g2176.t10 | Pfam | PF01873 | Domain found in IF2B/IF5 | 9 | 111 | 0 |
| 5 | g2176.t10 | SMART | SM00653 | eIF2Bneu4 | 14 | 111 | 0 |
| 4 | g2176.t10 | SUPERFAMILY | SSF100966 | Translation initiation factor 2 beta, aIF2beta, N-terminal domain | 5 | 100 | 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:0006413 | translational initiation | BP |
| GO:0003743 | translation initiation factor activity | 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.
