General information for g5788.t49
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein disulfide-isomerase.
Parent gene
- The parent gene g5788 is located on chr_2: 11943105..11945282 (- 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 | g5788 | g5788.t49 | TTS | g5788.t49 | 11940782 | 11940782 |
| chr_2 | g5788 | g5788.t49 | isoform | g5788.t49 | 11941239 | 11941773 |
| chr_2 | g5788 | g5788.t49 | exon | g5788.t49.exon1 | 11941239 | 11941773 |
| chr_2 | g5788 | g5788.t49 | cds | g5788.t49.CDS1 | 11941240 | 11941749 |
| chr_2 | g5788 | g5788.t49 | TSS | g5788.t49 | NA | NA |
Sequences
>g5788.t49 Gene=g5788 Length=535
AACCGTATTTTGGAATTCTTCGGTATGAAGAAAGACGAAGTTCCATCAATGAGAATCATT
CAATTGCAAGAAGATATGGCTAAATTCAAGCCAGAAAAAGCCGATTTGAGCGCTGATGCT
ATTAAAGACTTTGTTCAAAAGTTCTTGGATGGAAAATTGAAGCAACACTTGCTTAGTCAA
GAATTACCAGAAGATTGGGATAAGAATCCAGTTAAAGTTTTGGTTTCAACCAATTTCGAT
GAAGTGGCCTTCGATAAGACAAAGGATGTTCTAGTTGAATTCTATGCTCCCTGGTGCTCG
CATTGCAAGCAACTTGCTCCAATCTACGATCAATTGGCCGAGAAATTCAAGGATAATGAT
GCTATTGTTATTGCCAAGATGGATGCTACTGTAAATGAGCTAGAACATACAAAGATTCAA
TCCTTCCCAACACTCAAATTGTACAAAAAGGGTGATAACTCAGTTGTAGATTTTAATGGT
GAACGCACACTTGAAGGATTATCGAAATTCCTTGAATCAGGTGGCTTAGAAGATG
>g5788.t49 Gene=g5788 Length=170
MKKDEVPSMRIIQLQEDMAKFKPEKADLSADAIKDFVQKFLDGKLKQHLLSQELPEDWDK
NPVKVLVSTNFDEVAFDKTKDVLVEFYAPWCSHCKQLAPIYDQLAEKFKDNDAIVIAKMD
ATVNELEHTKIQSFPTLKLYKKGDNSVVDFNGERTLEGLSKFLESGGLED
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g5788.t49 | CDD | cd02995 | PDI_a_PDI_a’_C | 62 | 163 | 0.0000000 |
| 10 | g5788.t49 | Gene3D | G3DSA:3.40.30.10 | Glutaredoxin | 1 | 55 | 0.0000000 |
| 9 | g5788.t49 | Gene3D | G3DSA:3.40.30.10 | Glutaredoxin | 56 | 167 | 0.0000000 |
| 2 | g5788.t49 | PANTHER | PTHR18929:SF101 | PROTEIN DISULFIDE-ISOMERASE | 1 | 168 | 0.0000000 |
| 3 | g5788.t49 | PANTHER | PTHR18929 | PROTEIN DISULFIDE ISOMERASE | 1 | 168 | 0.0000000 |
| 6 | g5788.t49 | PRINTS | PR00421 | Thioredoxin family signature | 82 | 90 | 0.0000001 |
| 5 | g5788.t49 | PRINTS | PR00421 | Thioredoxin family signature | 90 | 99 | 0.0000001 |
| 4 | g5788.t49 | PRINTS | PR00421 | Thioredoxin family signature | 130 | 141 | 0.0000001 |
| 1 | g5788.t49 | Pfam | PF00085 | Thioredoxin | 63 | 164 | 0.0000000 |
| 12 | g5788.t49 | ProSiteProfiles | PS51352 | Thioredoxin domain profile. | 27 | 168 | 15.5730000 |
| 8 | g5788.t49 | SUPERFAMILY | SSF52833 | Thioredoxin-like | 4 | 59 | 0.0000000 |
| 7 | g5788.t49 | SUPERFAMILY | SSF52833 | Thioredoxin-like | 61 | 165 | 0.0000000 |
| 13 | g5788.t49 | TIGRFAM | TIGR01126 | pdi_dom: protein disulfide-isomerase domain | 66 | 164 | 0.0000000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5788/g5788.t49; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5788.t49.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0003756 | protein disulfide isomerase 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.
