General information for g16024.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Gamma-interferon-inducible lysosomal thiol reductase.
Parent gene
- The parent gene g16024 is located on chr_4: 7858629..7859347 (- 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_4 | g16024 | g16024.t3 | isoform | g16024.t3 | 7851527 | 7859347 |
| chr_4 | g16024 | g16024.t3 | exon | g16024.t3.exon1 | 7851527 | 7851541 |
| chr_4 | g16024 | g16024.t3 | exon | g16024.t3.exon2 | 7858657 | 7859347 |
| chr_4 | g16024 | g16024.t3 | cds | g16024.t3.CDS1 | 7858733 | 7859347 |
| chr_4 | g16024 | g16024.t3 | TSS | g16024.t3 | 7859448 | 7859448 |
| chr_4 | g16024 | g16024.t3 | TTS | g16024.t3 | NA | NA |
Sequences
>g16024.t3 Gene=g16024 Length=706
ATGACATTGAAACTCATCACAATTTTATTAGCTTTCTCGGGTTTTTCACAAGCTGCAAAG
CCATTAAAAATCGATGTTTATTTAGAAAGTCTTTGTCCAGCATCCAAAGCATTTATGCAA
GAACAACTTAAACCAAATTACGACGAAATCAAAAATGACGTTTTATTGAAATTTATTCCA
TTTGGAAAATCTCAAAGCACAACAAATTCTTCGGGAACATTCTTTGACTGTCAACATGGA
CGATATGAATGTGAAACCAACATGTTTCAAGCTTGCTCTTTAAATCTCATAGGTGATGAC
CAAGAACGACAAACACAATTTATGATTTGTACAATGGAAACTCAACCTGAAAGATTTCCA
TGTGCTGAAAAAGCTGGATTAAAAATTGATGATGTTAAAAAATGTACAGAAGGTGAAGAA
GGAATTAAATTGCAATTAGAAAATGAAAAATTGACCAAACCAATCATCAATCAAAGTGGT
CATGTGCCATCAATTGTTTTCAATGGAATTTGGACTGAAGAAGATGACGATGCTGCACAA
GAAAATTTTTTGAAAATAGTTCAAGATAAATTGAAAGAAGATTTTGTTATTAAGGAAGTA
AATATTATTTTATAAATTTAAATTCTAGTGATTAAAATTTTGACAATTTTCAGTGGCTTC
TTTATAGGATTTATAAATTTATGGGAATAATAAAGGCCTTTAAATT
>g16024.t3 Gene=g16024 Length=204
MTLKLITILLAFSGFSQAAKPLKIDVYLESLCPASKAFMQEQLKPNYDEIKNDVLLKFIP
FGKSQSTTNSSGTFFDCQHGRYECETNMFQACSLNLIGDDQERQTQFMICTMETQPERFP
CAEKAGLKIDDVKKCTEGEEGIKLQLENEKLTKPIINQSGHVPSIVFNGIWTEEDDDAAQ
ENFLKIVQDKLKEDFVIKEVNIIL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g16024.t3 | Gene3D | G3DSA:3.40.30.10 | Glutaredoxin | 14 | 196 | 1.4E-6 |
| 2 | g16024.t3 | PANTHER | PTHR13234:SF56 | GH19763P | 8 | 190 | 1.7E-41 |
| 3 | g16024.t3 | PANTHER | PTHR13234 | GAMMA-INTERFERON INDUCIBLE LYSOSOMAL THIOL REDUCTASE GILT | 8 | 190 | 1.7E-41 |
| 1 | g16024.t3 | Pfam | PF03227 | Gamma interferon inducible lysosomal thiol reductase (GILT) | 23 | 123 | 1.1E-25 |
| 9 | g16024.t3 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 10 | g16024.t3 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 11 | g16024.t3 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 13 | - |
| 12 | g16024.t3 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 18 | - |
| 8 | g16024.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 204 | - |
| 4 | g16024.t3 | SUPERFAMILY | SSF52833 | Thioredoxin-like | 18 | 185 | 5.11E-5 |
| 6 | g16024.t3 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
| 13 | g16024.t3 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
| 5 | g16024.t3 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 18 | - |
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 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.
