General information for g4078.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cytochrome c oxidase assembly factor 7-like protein.
Parent gene
- The parent gene g4078 is located on chr_3: 30467590..30468941 (+ 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 | g4078 | g4078.t2 | isoform | g4078.t2 | 30457173 | 30467713 |
| chr_3 | g4078 | g4078.t2 | exon | g4078.t2.exon1 | 30457173 | 30457184 |
| chr_3 | g4078 | g4078.t2 | exon | g4078.t2.exon2 | 30467005 | 30467713 |
| chr_3 | g4078 | g4078.t2 | cds | g4078.t2.CDS1 | 30467183 | 30467590 |
| chr_3 | g4078 | g4078.t2 | TTS | g4078.t2 | 30467678 | 30467678 |
| chr_3 | g4078 | g4078.t2 | TSS | g4078.t2 | NA | NA |
Sequences
>g4078.t2 Gene=g4078 Length=721
TTCATAAATTAAAGCAAATTGTGATGATTATGGTCATGCGAAGTCGTGTCTAAAATTTGG
TCATTATAGTTTCTTAGGCAAAGGTAAATCTTCCAGCATCGAAAAAGGAGACCCGAAACA
AGCGTTTCAATATTATAAAAAAGGCTGTGAGCTCAAAGATGCTGATTGTTGCTTACATAG
TGGTCTGCTCATGGTAAGCAGGACTAAACCTGCACTTGTCGAACGCGATGTAATTAAAGG
AATGGATGCTCTTCAAAAAAGTTGTTCGCTCAATAATGGAACTGCATGCTTCTATTTATC
TGGCATGTTTATATCTGGTGTTTTTAAAAATGAAGATGCAAAGAAATCTGCAAAACCTGA
ACCAAGTGAATTTTTAATTCCAAAAGATATGAAGAAAGCATTTGAATTTGCAACTAAAGC
TTGTGAACTTGACAACATGTATGCATGCTCTAATCTATCACAGATGTATTCTAAAGGCGA
TGGCACAGAAAAGAATGATAAGAAAGCTGAACATTTTAAAAAGAAGGCTTTAGATATGCA
AGATCAATTAAAGAAACAACATGAAGAAGTTAAATTTCAACAAGGACTGGGTGTGTAAAA
ATAATATACTATAATAATTGTAGTGAGAATCAAAGACAAATATTTAGCATATAAAATATG
ATTAATAAAAGCAGCATGTGTTTATTCTTTAATTGTATTAGATAAATTATTAATTTAATT
T
>g4078.t2 Gene=g4078 Length=135
MVSRTKPALVERDVIKGMDALQKSCSLNNGTACFYLSGMFISGVFKNEDAKKSAKPEPSE
FLIPKDMKKAFEFATKACELDNMYACSNLSQMYSKGDGTEKNDKKAEHFKKKALDMQDQL
KKQHEEVKFQQGLGV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g4078.t2 | Coils | Coil | Coil | 106 | 126 | - |
| 7 | g4078.t2 | Gene3D | G3DSA:1.25.40.10 | - | 6 | 135 | 4.0E-19 |
| 3 | g4078.t2 | PANTHER | PTHR13891 | UNCHARACTERIZED | 10 | 130 | 1.3E-30 |
| 1 | g4078.t2 | Pfam | PF08238 | Sel1 repeat | 63 | 82 | 0.17 |
| 2 | g4078.t2 | Pfam | PF08238 | Sel1 repeat | 85 | 116 | 0.0026 |
| 5 | g4078.t2 | SMART | SM00671 | sel1 | 30 | 82 | 27.0 |
| 6 | g4078.t2 | SMART | SM00671 | sel1 | 83 | 118 | 9.2E-6 |
| 4 | g4078.t2 | SUPERFAMILY | SSF81901 | HCP-like | 12 | 118 | 3.14E-16 |
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:0005515 | protein binding | 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.
