General information for g5492.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5492 is located on chr_2: 9851142..9862503 (- 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 | g5492 | g5492.t2 | isoform | g5492.t2 | 9850825 | 9851743 |
| chr_2 | g5492 | g5492.t2 | exon | g5492.t2.exon1 | 9850825 | 9851436 |
| chr_2 | g5492 | g5492.t2 | cds | g5492.t2.CDS1 | 9850825 | 9851256 |
| chr_2 | g5492 | g5492.t2 | exon | g5492.t2.exon2 | 9851497 | 9851743 |
| chr_2 | g5492 | g5492.t2 | TSS | g5492.t2 | 9851874 | 9851874 |
| chr_2 | g5492 | g5492.t2 | TTS | g5492.t2 | NA | NA |
Sequences
>g5492.t2 Gene=g5492 Length=859
ATGTTTTTAACAAGAGTTATTAAAAATACGAATTATTTATGGAGAAGTATAGCAACAAGT
GCAGTAACAAAGTGTCAAAGTAATAGCAATCAATTGGTGATTGTTGATATCAATGATAAA
ACAGGATATGCTACTTTATCGTTGAATCGACCACCAGCAAATTCATTTAACCTTGAACAA
CTTGTGGCGTTTTCAAAAGCATTGGATGATATTGAGAAGAGTAAAGTTAAAGGAATGATT
TTAACAAAACGTACCAAAAATATTTTCTGTTGGATTTGATGTCAGAGAATTTAATAGCTC
TGATGAAAATCGACTTCGTGAATTTTGGACAGTTGTTCAAGATTGTTGGTTAAAGCTCTA
TGGATCATATTATCCAACTGCTGCTGCCATCACTGGACATAATCCTGCTGGAGGTTGTTT
CTTTAGCATGTCGTGTGAATATCGAGTTATGGTTTCAAAATCAAAAATTGGTTTGAGTGG
AGCACGCTTAGGAATTGCAATTCCTTTACCAATTATTTTATCTATGAGAAGTATATTGTC
ACCACATGCAACAGAATTAGCCATTACAACAGGAAAACTCTTTACAACTGAAGAAGCTCT
CAAAATTGGTTTGATTGATGAAATTGCAGAAGATAAAGAAGATGCTCTGCGAAAATGTGA
ACGATTTCTTGATCGTTTCAAAAAAATTCCTCCAAATGCTCGTGCTTTAACAAAACAAGC
TATAAGAAAGAAGGAACTCGATGAAATTGCTAACAATCGTAAGCGTGATGTTGATGAATT
TATAGCTGCTGTCACAAGTCATGAAGCAAAAGAATCATTTGAGATTTTTCTTGATCCATC
AAAATACAAGGAAAATTAA
>g5492.t2 Gene=g5492 Length=143
MSCEYRVMVSKSKIGLSGARLGIAIPLPIILSMRSILSPHATELAITTGKLFTTEEALKI
GLIDEIAEDKEDALRKCERFLDRFKKIPPNARALTKQAIRKKELDEIANNRKRDVDEFIA
AVTSHEAKESFEIFLDPSKYKEN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g5492.t2 | Coils | Coil | Coil | 63 | 83 | - |
| 5 | g5492.t2 | Gene3D | G3DSA:3.90.226.10 | - | 1 | 119 | 8.9E-22 |
| 2 | g5492.t2 | PANTHER | PTHR11941:SF45 | ENOYL-COA DELTA ISOMERASE 1, MITOCHONDRIAL | 1 | 141 | 3.6E-31 |
| 3 | g5492.t2 | PANTHER | PTHR11941 | ENOYL-COA HYDRATASE-RELATED | 1 | 141 | 3.6E-31 |
| 1 | g5492.t2 | Pfam | PF00378 | Enoyl-CoA hydratase/isomerase | 1 | 139 | 4.9E-11 |
| 4 | g5492.t2 | SUPERFAMILY | SSF52096 | ClpP/crotonase | 1 | 137 | 7.85E-19 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5492/g5492.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5492.t2.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0003824 | catalytic 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.
