General information for g9370.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Eukaryotic translation initiation factor 6.
Parent gene
- The parent gene g9370 is located on chr_1: 2285081..2285851 (+ 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_1 | g9370 | g9370.t2 | isoform | g9370.t2 | 2284972 | 2285596 |
| chr_1 | g9370 | g9370.t2 | exon | g9370.t2.exon1 | 2284972 | 2285078 |
| chr_1 | g9370 | g9370.t2 | cds | g9370.t2.CDS1 | 2284972 | 2285078 |
| chr_1 | g9370 | g9370.t2 | TSS | g9370.t2 | 2285007 | 2285007 |
| chr_1 | g9370 | g9370.t2 | exon | g9370.t2.exon2 | 2285140 | 2285596 |
| chr_1 | g9370 | g9370.t2 | cds | g9370.t2.CDS2 | 2285140 | 2285596 |
| chr_1 | g9370 | g9370.t2 | TTS | g9370.t2 | 2286013 | 2286013 |
Sequences
>g9370.t2 Gene=g9370 Length=564
ATGGCTTTGCGTACAGAATTTGAAAATTCAAGTGACATTGGTGTATTTGCAATTCTCACA
AATAGTTATTGCTTGACAGCTATTGGCGGATCAGAAGCTTTTTACAGTGTATTTGAATCA
GAATTTGCTGGCCAAGATAATAATTCAAGTGTTATTCCTGTTGTACATACAAGTATTGGT
GGCTGTAGAATTATAGGAAGATTGGCAGTAGGAAATAGACATGGGCTTCTCGTTCCTTCT
AACACAACAGATCTTGAATTGCAACACATAAGAAATGCTCTTCCTGATAATGTGCAAATT
CAAAGAGTTGAAGAAAGACTTTCAGCTTTGGGAAATGTTATAGCCTGCAATGATTATGTA
GCACTTATTCACCCCGACCTTGATAGAGAAACGGAAAATATAATTAAAGATGTACTGAAA
GTAGAAGTTTACAGACAAACAATTGCTGGCAACAGTTTAGTTGGTGCTTATTCTGTTTTT
AATAATCAAGGTGGTGTAATTCATCCGAAAGCTACAGCACAAGAATTGGACGAATTATCA
TCACTTTTACAAATTCCATTAGTT
>g9370.t2 Gene=g9370 Length=188
MALRTEFENSSDIGVFAILTNSYCLTAIGGSEAFYSVFESEFAGQDNNSSVIPVVHTSIG
GCRIIGRLAVGNRHGLLVPSNTTDLELQHIRNALPDNVQIQRVEERLSALGNVIACNDYV
ALIHPDLDRETENIIKDVLKVEVYRQTIAGNSLVGAYSVFNNQGGVIHPKATAQELDELS
SLLQIPLV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9370.t2 | CDD | cd00527 | IF6 | 2 | 188 | 0.00000 |
| 5 | g9370.t2 | Gene3D | G3DSA:3.75.10.10 | - | 1 | 188 | 0.00000 |
| 3 | g9370.t2 | Hamap | MF_00032 | Translation initiation factor 6 [eif6]. | 1 | 188 | 93.26736 |
| 2 | g9370.t2 | PANTHER | PTHR10784 | EUKARYOTIC TRANSLATION INITIATION FACTOR 6 | 1 | 188 | 0.00000 |
| 6 | g9370.t2 | PIRSF | PIRSF006413 | Transl_init_IF-6 | 1 | 188 | 0.00000 |
| 1 | g9370.t2 | Pfam | PF01912 | eIF-6 family | 4 | 187 | 0.00000 |
| 8 | g9370.t2 | SMART | SM00654 | eIF6neu2 | 3 | 188 | 0.00000 |
| 4 | g9370.t2 | SUPERFAMILY | SSF55909 | Pentein | 1 | 187 | 0.00000 |
| 9 | g9370.t2 | TIGRFAM | TIGR00323 | eIF-6: putative translation initiation factor eIF-6 | 4 | 188 | 0.00000 |
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:0043022 | ribosome binding | MF |
| GO:0042256 | mature ribosome assembly | 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