Gene loci information

Transcript annotation

  • This transcript has been annotated as Thioredoxin.

Parent gene

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_3 g183 g183.t5 TSS g183.t5 1570119 1570119
chr_3 g183 g183.t5 isoform g183.t5 1570184 1571501
chr_3 g183 g183.t5 exon g183.t5.exon1 1570184 1570363
chr_3 g183 g183.t5 cds g183.t5.CDS1 1570184 1570363
chr_3 g183 g183.t5 exon g183.t5.exon2 1570471 1570700
chr_3 g183 g183.t5 cds g183.t5.CDS2 1570471 1570635
chr_3 g183 g183.t5 exon g183.t5.exon3 1570836 1571501
chr_3 g183 g183.t5 TTS g183.t5 1571496 1571496

Sequences

>g183.t5 Gene=g183 Length=1076
ATGAAGCCAATTGGATATTTTGACATTCAAAATGAAGACGATTTTAATGAAAAAGTACTC
AATTGTAACAATCCAGTGCTTGTCGGTTTCTATGCTCCATGGTGTGAATCGTGCAGGGTT
ACTATGCCAAAATTAGAGAAAGTTGTTGAAGAAAATGATGGAAAAATTCGTTTGGCAAAA
GTCAACATTGATGATAAGGCATTACAAGACTTGGCGATTAAATACAATTTTAAATCAGTT
CCAGTAACTGCTGTGATTAAAGATGGAAAACTTCGATCACAATTAGTTGGAAAGCAAGAA
TTGGAAAATGTTAGACAATTTGTGCAGTCAACTCTTAATGAATAAACAAAAAAAAATATT
ATGACTCATCGCTGACTCTCTCGAATGTTAGGGAAAAAATCAAATACGTATTTCGATAAA
TTTTTGGGAATTTTTAAAATAAATAACAAGGTATGGAACGCGATTCGGTAAAAAATCGTA
AAAAATCACTATAAATCGCTTTGTTTTTATACTTTGATAAATAATCAAATCAAGGGGTGA
CAATTTTAGATTGATTAATTAATTTTAGAATAAACATTTGCATAAAATATTATTTTAAAT
TTGAATCGTTTTGCTCATTTTAAATAAAACATTCCAATGCTTTATCAAAATATTAATTAA
ATATTTTGAATTAAAGTTTCATATTTTTTTGATGAGCGTAAAATATGCAAAAAAATTGAT
TTTGAAAAAATTTTATTTAAGATTTTAGAGAGTTCCTTAGGAGAACAATTATTGAAAAGA
ATTTGGTTATTATTATAATTCAGTAGTATGCAGATAAAAAGAAAAAGTATACAAATACTT
CTTAACTGCATAATACTGAATAATTTTTTGCTTATGTCACAACTATTTAATCAATTTCGT
ATATGTGCACTTATATTTAATTTTAATTTTTTCTCAAGCAAACAGCAAAAGATTTTTAGT
AGAAGTTGATATAAAATATATCCTTAACATGATAGCAATACATAACATATTCTAAAGCAT
AAAAAAGTGTTTTTAAATTCTTTAAAATAAAGAGAAAATTTGTTTTCTAAGAAAAA

>g183.t5 Gene=g183 Length=114
MKPIGYFDIQNEDDFNEKVLNCNNPVLVGFYAPWCESCRVTMPKLEKVVEENDGKIRLAK
VNIDDKALQDLAIKYNFKSVPVTAVIKDGKLRSQLVGKQELENVRQFVQSTLNE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g183.t5 CDD cd02947 TRX_family 13 109 8.74101E-23
5 g183.t5 Gene3D G3DSA:3.40.30.10 Glutaredoxin 4 112 1.6E-27
2 g183.t5 PANTHER PTHR43601:SF3 THIOREDOXIN, MITOCHONDRIAL 6 108 6.3E-23
3 g183.t5 PANTHER PTHR43601 THIOREDOXIN, MITOCHONDRIAL 6 108 6.3E-23
6 g183.t5 PIRSF PIRSF000077 Thioredoxin 6 112 5.2E-25
1 g183.t5 Pfam PF00085 Thioredoxin 10 109 5.8E-21
8 g183.t5 ProSitePatterns PS00194 Thioredoxin family active site. 27 45 -
9 g183.t5 ProSiteProfiles PS51352 Thioredoxin domain profile. 1 113 12.151
4 g183.t5 SUPERFAMILY SSF52833 Thioredoxin-like 7 113 5.36E-27

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:0015035 protein-disulfide reductase activity MF
GO:0006662 glycerol ether metabolic process BP
GO:0045454 cell redox homeostasis BP

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. There were no conditions that were differentially expressed