General information for g9370.t1
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.t1 | isoform | g9370.t1 | 2284972 | 2285851 |
| chr_1 | g9370 | g9370.t1 | exon | g9370.t1.exon1 | 2284972 | 2285078 |
| chr_1 | g9370 | g9370.t1 | cds | g9370.t1.CDS1 | 2284972 | 2285078 |
| chr_1 | g9370 | g9370.t1 | TSS | g9370.t1 | 2285007 | 2285007 |
| chr_1 | g9370 | g9370.t1 | exon | g9370.t1.exon2 | 2285140 | 2285596 |
| chr_1 | g9370 | g9370.t1 | cds | g9370.t1.CDS2 | 2285140 | 2285596 |
| chr_1 | g9370 | g9370.t1 | exon | g9370.t1.exon3 | 2285660 | 2285851 |
| chr_1 | g9370 | g9370.t1 | cds | g9370.t1.CDS3 | 2285660 | 2285851 |
| chr_1 | g9370 | g9370.t1 | TTS | g9370.t1 | 2286013 | 2286013 |
Sequences
>g9370.t1 Gene=g9370 Length=756
ATGGCTTTGCGTACAGAATTTGAAAATTCAAGTGACATTGGTGTATTTGCAATTCTCACA
AATAGTTATTGCTTGACAGCTATTGGCGGATCAGAAGCTTTTTACAGTGTATTTGAATCA
GAATTTGCTGGCCAAGATAATAATTCAAGTGTTATTCCTGTTGTACATACAAGTATTGGT
GGCTGTAGAATTATAGGAAGATTGGCAGTAGGAAATAGACATGGGCTTCTCGTTCCTTCT
AACACAACAGATCTTGAATTGCAACACATAAGAAATGCTCTTCCTGATAATGTGCAAATT
CAAAGAGTTGAAGAAAGACTTTCAGCTTTGGGAAATGTTATAGCCTGCAATGATTATGTA
GCACTTATTCACCCCGACCTTGATAGAGAAACGGAAAATATAATTAAAGATGTACTGAAA
GTAGAAGTTTACAGACAAACAATTGCTGGCAACAGTTTAGTTGGTGCTTATTCTGTTTTT
AATAATCAAGGTGGTGTAATTCATCCGAAAGCTACAGCACAAGAATTGGACGAATTATCA
TCACTTTTACAAATTCCATTAGTTGCCGGCACAGTGAATAGAGGAAGTGAATTACTTGCA
GCTGGTATAGTTGTAAATGATTGGACAGCATTTTGTGGAATAACAACGACATCGACGGAA
CTATCTGTAATCGAGAGCATCTTCAAACTTAATTCCAATCAACCATCTAAGATAACATCA
GAATTGCGTGCATCACTCATTGAATCAATGACGTAA
>g9370.t1 Gene=g9370 Length=251
MALRTEFENSSDIGVFAILTNSYCLTAIGGSEAFYSVFESEFAGQDNNSSVIPVVHTSIG
GCRIIGRLAVGNRHGLLVPSNTTDLELQHIRNALPDNVQIQRVEERLSALGNVIACNDYV
ALIHPDLDRETENIIKDVLKVEVYRQTIAGNSLVGAYSVFNNQGGVIHPKATAQELDELS
SLLQIPLVAGTVNRGSELLAAGIVVNDWTAFCGITTTSTELSVIESIFKLNSNQPSKITS
ELRASLIESMT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9370.t1 | CDD | cd00527 | IF6 | 2 | 229 | 0.0000 |
| 5 | g9370.t1 | Gene3D | G3DSA:3.75.10.10 | - | 1 | 231 | 0.0000 |
| 3 | g9370.t1 | Hamap | MF_00032 | Translation initiation factor 6 [eif6]. | 1 | 251 | 124.2466 |
| 2 | g9370.t1 | PANTHER | PTHR10784 | EUKARYOTIC TRANSLATION INITIATION FACTOR 6 | 1 | 250 | 0.0000 |
| 6 | g9370.t1 | PIRSF | PIRSF006413 | Transl_init_IF-6 | 1 | 232 | 0.0000 |
| 1 | g9370.t1 | Pfam | PF01912 | eIF-6 family | 4 | 209 | 0.0000 |
| 8 | g9370.t1 | SMART | SM00654 | eIF6neu2 | 3 | 210 | 0.0000 |
| 4 | g9370.t1 | SUPERFAMILY | SSF55909 | Pentein | 1 | 230 | 0.0000 |
| 9 | g9370.t1 | TIGRFAM | TIGR00323 | eIF-6: putative translation initiation factor eIF-6 | 4 | 230 | 0.0000 |
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 transcript has been annotated with K03264 (translation initiation factor 6)
Pathway
- This transcript belongs to the following pathways
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.
