General information for g13993.t8
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial.
Parent gene
- The parent gene g13993 is located on chr_1: 33864706..33865618 (+ 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 | g13993 | g13993.t8 | TSS | g13993.t8 | 33863845 | 33863845 |
| chr_1 | g13993 | g13993.t8 | isoform | g13993.t8 | 33864706 | 33865618 |
| chr_1 | g13993 | g13993.t8 | exon | g13993.t8.exon1 | 33864706 | 33865618 |
| chr_1 | g13993 | g13993.t8 | cds | g13993.t8.CDS1 | 33864709 | 33865548 |
| chr_1 | g13993 | g13993.t8 | TTS | g13993.t8 | 33865643 | 33865643 |
Sequences
>g13993.t8 Gene=g13993 Length=913
ATCATGGCTGTTGGCACGCATGCTCTTGATATTGGCGCATTAACACCATTCTTCTGGCTT
TTTGAAGAGCGTGAGAAGATGATGGAATTCTATGAACGTGTATCAGGTGCTCGTATGCAC
GCTGCTTATATTCGTCCAGGCGGTGTGAGTCAAGATTTGCCTCTTGGTCTTCTTGACGAC
ATTTACGAGTTTGCATCGAAATTTAGCGAACGATTAGATGAAACTGAAGATCTTTTGACA
AATAATCGCTTATGGATCCAAAGAACAGAAGATATTGGTGTTGTAACAGCTGAAGAAGCT
CTTAATTATGGCTTCAGTGGTGTTATGCTGCGAGGATCAGGAATCAAATGGGATCTGCGC
AAAACTCAACCTTATGACGCCTATCATTTAGTAGAATTTGACGTTCCAATTGGCACAAAG
GGAGATTGTTACGATCGTTATTTGTGTCGTGTTGAAGAAATGCGTCAATCTCTTAGAATT
ATTGATCAATGCTTAAATCAAATGCCACCAGGTGAAATTAAGGTTGATGACGCCAAATTA
ACACCACCATCACGTCACGAAATGAAAACGTCAATGGAAGCCCTCATTCATCACTTTAAA
CTATTCACACAAGGATATCAAGTTCCTCCTGGCTCAACTTACACAGCAATTGAAGCTCCC
AAAGGAGAATTTGGTGTTTATTTAGTAGCTGACGGTTCAAGCAGACCATATAGATGTAAA
ATCAAACCTCCAGGCTTCGCACATTTAGCTGCTATTGACAAAATTGGCAAGAATCATATG
CTTGCTGATATTGTAGCCATTATTGGAACACTTGATGTTGTCTTTGGTGAAATTGATCGA
TAAAGTGTTTTATAGAATAACTATGCGTAAAATTCATTTTGTGTAAAAAAATATAACAAA
ATTGGAATGTTCA
>g13993.t8 Gene=g13993 Length=279
MAVGTHALDIGALTPFFWLFEEREKMMEFYERVSGARMHAAYIRPGGVSQDLPLGLLDDI
YEFASKFSERLDETEDLLTNNRLWIQRTEDIGVVTAEEALNYGFSGVMLRGSGIKWDLRK
TQPYDAYHLVEFDVPIGTKGDCYDRYLCRVEEMRQSLRIIDQCLNQMPPGEIKVDDAKLT
PPSRHEMKTSMEALIHHFKLFTQGYQVPPGSTYTAIEAPKGEFGVYLVADGSSRPYRCKI
KPPGFAHLAAIDKIGKNHMLADIVAIIGTLDVVFGEIDR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g13993.t8 | Gene3D | G3DSA:1.10.645.20 | - | 1 | 279 | 0 |
| 2 | g13993.t8 | PANTHER | PTHR11993 | NADH-UBIQUINONE OXIDOREDUCTASE 49 KDA SUBUNIT | 1 | 279 | 0 |
| 1 | g13993.t8 | Pfam | PF00346 | Respiratory-chain NADH dehydrogenase, 49 Kd subunit | 9 | 279 | 0 |
| 3 | g13993.t8 | SUPERFAMILY | SSF56762 | HydB/Nqo4-like | 2 | 279 | 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:0016651 | oxidoreductase activity, acting on NAD(P)H | MF |
| GO:0051287 | NAD binding | MF |
| GO:0048038 | quinone binding | MF |
| GO:0055114 | NA | NA |
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.
