General information for g9848.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative NADH dehydrogenase [ubiquinone] 1 alpha subcomplex assembly factor 3.
Parent gene
- The parent gene g9848 is located on chr_1: 5582680..5583349 (+ 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 | g9848 | g9848.t2 | TSS | g9848.t2 | 5582652 | 5582652 |
| chr_1 | g9848 | g9848.t2 | isoform | g9848.t2 | 5582680 | 5583246 |
| chr_1 | g9848 | g9848.t2 | exon | g9848.t2.exon1 | 5582680 | 5582930 |
| chr_1 | g9848 | g9848.t2 | cds | g9848.t2.CDS1 | 5582680 | 5582930 |
| chr_1 | g9848 | g9848.t2 | exon | g9848.t2.exon2 | 5582990 | 5583246 |
| chr_1 | g9848 | g9848.t2 | cds | g9848.t2.CDS2 | 5582990 | 5583245 |
| chr_1 | g9848 | g9848.t2 | TTS | g9848.t2 | 5583369 | 5583369 |
Sequences
>g9848.t2 Gene=g9848 Length=508
ATGTCGCTTCGGAAATTAATTTTTAATAGAAATTCTCTACTATTAAGAGCTGCTAATCAA
CACATAAATAAACATCAGTTTTGTACTGCATCAAATCCGGGAACTAAAACATATGAAGGC
GATGGAAAAACTTCAGTAAACATATTAAATAATGATATGGAAAATGGTCTTCTCATAAAT
TCAATTAGTCAAGCCGGATTTCGATTAAACAATGATATTTTCATCATAGGACCAATGATT
ATTTTACCAAGATCGGTGCTTTCATGGAATATCGAAAATTTTAATCACATTAATGAGAAC
TCACTTTCAATCTTTAAAGTAATTGAGCCTAAAATGGATCTAATTGTTATTGGAATTGGT
GATCAAAAACCGACAGCAGAATTTCAGAGGAAAATTTTAGCTTTTATGAGAAAGTACAAT
GTTAATGTAGAAGTTCTACAAACTGAACAAGCTTGTGCCACTTTTAATTTTCTCAATGCA
GAAGGAAGAATGGTCGCCGGTGCTTTAA
>g9848.t2 Gene=g9848 Length=169
MSLRKLIFNRNSLLLRAANQHINKHQFCTASNPGTKTYEGDGKTSVNILNNDMENGLLIN
SISQAGFRLNNDIFIIGPMIILPRSVLSWNIENFNHINENSLSIFKVIEPKMDLIVIGIG
DQKPTAEFQRKILAFMRKYNVNVEVLQTEQACATFNFLNAEGRMVAGAL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g9848.t2 | Gene3D | G3DSA:3.40.1230.10 | - | 43 | 169 | 0 |
| 2 | g9848.t2 | PANTHER | PTHR21192 | NUCLEAR PROTEIN E3-3 | 19 | 169 | 0 |
| 1 | g9848.t2 | Pfam | PF04430 | Protein of unknown function (DUF498/DUF598) | 59 | 169 | 0 |
| 3 | g9848.t2 | SUPERFAMILY | SSF64076 | MTH938-like | 47 | 169 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K09008 (NADH dehydrogenase [ubiquinone] 1 alpha subcomplex assembly factor 3)
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.
