General information for g7339.t29
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as L-lactate dehydrogenase.
Parent gene
- The parent gene g7339 is located on chr_2: 23114611..23115372 (- 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_2 | g7339 | g7339.t29 | isoform | g7339.t29 | 23113397 | 23114611 |
| chr_2 | g7339 | g7339.t29 | exon | g7339.t29.exon1 | 23113397 | 23113670 |
| chr_2 | g7339 | g7339.t29 | cds | g7339.t29.CDS1 | 23113399 | 23113670 |
| chr_2 | g7339 | g7339.t29 | exon | g7339.t29.exon2 | 23113728 | 23114024 |
| chr_2 | g7339 | g7339.t29 | cds | g7339.t29.CDS2 | 23113728 | 23114016 |
| chr_2 | g7339 | g7339.t29 | exon | g7339.t29.exon3 | 23114533 | 23114611 |
| chr_2 | g7339 | g7339.t29 | TSS | g7339.t29 | 23115448 | 23115448 |
| chr_2 | g7339 | g7339.t29 | TTS | g7339.t29 | NA | NA |
Sequences
>g7339.t29 Gene=g7339 Length=650
AAATTAATTTTCTAAGCTATTTATCGAGCACTGATTTACTTTTACTGATTAGATAAAGAA
ACATATTTTAAATTAAAAAATCCACAAATGGCAAGTCTTAAAGATCAAATGTTCCAAGCA
GTCGCTGAGGATGTGGACTCAAAATCGTCAAATAAAGTCACCGTTGTCGGAATCGGAGCT
GTTGGAATGGCTGCCGCTTTCTCTATTTTGGCTCAAAATGTTTCAAGTGACGTTGCTCTC
ATCGATATGTTTGAGAACAAATTGAAAGGAGAGATGATGGATTTGCAACACGGATCTAAC
TTTTTGAAGAATGCTAAAATTTCTGCTAGTACTGATTTGTCAGTCTCTGCTAATTCACGT
TTAATCATTGTTACCGCTGGTGTACGCCAGAAGGAAGGCGAGTCACGTTTGGATTTAGTT
CAACGTAATGCAGACATCATGAAGAATTTGATTCCAAAACTCGTCGAATACAGTCCTGAT
ACTACACTTTTGATTGTCTCAAATCCATGTGATATCTTGACATATGTTGCATGGAAATTA
TCAGGATTGCCTAAGAACAGAGTTATTGGATCAGGAACTAATTTGGACTCATCTCGTTTC
CGTTTCTTGCTTGCTCAACGTTTGAACGTTGCTCCAACATCTATGCACGG
>g7339.t29 Gene=g7339 Length=187
MASLKDQMFQAVAEDVDSKSSNKVTVVGIGAVGMAAAFSILAQNVSSDVALIDMFENKLK
GEMMDLQHGSNFLKNAKISASTDLSVSANSRLIIVTAGVRQKEGESRLDLVQRNADIMKN
LIPKLVEYSPDTTLLIVSNPCDILTYVAWKLSGLPKNRVIGSGTNLDSSRFRFLLAQRLN
VAPTSMH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g7339.t29 | Gene3D | G3DSA:3.40.50.720 | - | 1 | 162 | 0.0e+00 |
| 8 | g7339.t29 | Gene3D | G3DSA:3.90.110.10 | - | 163 | 187 | 1.8e-05 |
| 2 | g7339.t29 | PANTHER | PTHR43128 | L-2-HYDROXYCARBOXYLATE DEHYDROGENASE (NAD(P)(+)) | 1 | 187 | 0.0e+00 |
| 3 | g7339.t29 | PRINTS | PR00086 | L-lactate dehydrogenase signature | 23 | 47 | 0.0e+00 |
| 6 | g7339.t29 | PRINTS | PR00086 | L-lactate dehydrogenase signature | 48 | 72 | 0.0e+00 |
| 5 | g7339.t29 | PRINTS | PR00086 | L-lactate dehydrogenase signature | 135 | 155 | 0.0e+00 |
| 4 | g7339.t29 | PRINTS | PR00086 | L-lactate dehydrogenase signature | 159 | 177 | 0.0e+00 |
| 1 | g7339.t29 | Pfam | PF00056 | lactate/malate dehydrogenase, NAD binding domain | 23 | 161 | 0.0e+00 |
| 7 | g7339.t29 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 2 | 161 | 0.0e+00 |
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:0019752 | carboxylic acid metabolic process | BP |
| GO:0016616 | oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor | MF |
| GO:0005975 | carbohydrate metabolic process | BP |
| GO:0003824 | catalytic activity | MF |
| GO:0055114 | NA | NA |
| GO:0016491 | oxidoreductase activity | 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.
