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_2 g7730 g7730.t7 TTS g7730.t7 25590078 25590078
chr_2 g7730 g7730.t7 isoform g7730.t7 25590195 25590951
chr_2 g7730 g7730.t7 exon g7730.t7.exon1 25590195 25590350
chr_2 g7730 g7730.t7 cds g7730.t7.CDS1 25590195 25590350
chr_2 g7730 g7730.t7 exon g7730.t7.exon2 25590415 25590496
chr_2 g7730 g7730.t7 cds g7730.t7.CDS2 25590415 25590496
chr_2 g7730 g7730.t7 exon g7730.t7.exon3 25590552 25590801
chr_2 g7730 g7730.t7 cds g7730.t7.CDS3 25590552 25590724
chr_2 g7730 g7730.t7 TSS g7730.t7 25590803 25590803
chr_2 g7730 g7730.t7 exon g7730.t7.exon4 25590863 25590951

Sequences

>g7730.t7 Gene=g7730 Length=577
TTTTGAAAGTTCAATTGTTGTCATTTCTTAAAGCTTATTTTAAATTGTATTAGAAGCTTT
TATCTAAAAGAAAAAGTTTTAATCATATTGAAAATAGAAATAGAAAATTTTCATCAAAAA
CAAAATAAGTTATAATTGTAAAATTTTAGCCATTTAAATTATCAAGATGCTTAGAAACAT
TGCAAAATTAAATATTACAAGAGCGATCATTAGTTCAGCACAAAGAAATGTTTCAACATC
ATCGAGATTGTTTGATATTTTCAAAGTGCAAGATGAGAAAGATTTTGAGGAGAGAGTACT
AAAATCTAAAAATGTTGTAGTCGTCGATTTCATGGCAACTTGGTGCAATCCGTGCAAAAT
GTTAGGACCGAGGATAGAAAAAGTCGTAGAAGAGAACAAAGGAAAGGTGTCATTAGCAAA
AGTCGATATTGATGAGCTAACTGATCTTTCACTTGAATATGGTGTTCAGGCAGTTCCCGT
ATTAGCAATCATTAAGGATGGAAAGGTTCAAAAACAACTAATAGGTCTACAAGACGTTGA
TGTTATCAGAAAATTTGTTAAGAGCAGCATCGAGTAG

>g7730.t7 Gene=g7730 Length=136
MLRNIAKLNITRAIISSAQRNVSTSSRLFDIFKVQDEKDFEERVLKSKNVVVVDFMATWC
NPCKMLGPRIEKVVEENKGKVSLAKVDIDELTDLSLEYGVQAVPVLAIIKDGKVQKQLIG
LQDVDVIRKFVKSSIE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g7730.t7 CDD cd02947 TRX_family 38 132 0.00000
8 g7730.t7 Gene3D G3DSA:3.40.30.10 Glutaredoxin 18 135 0.00000
2 g7730.t7 PANTHER PTHR43601:SF3 THIOREDOXIN, MITOCHONDRIAL 30 130 0.00000
3 g7730.t7 PANTHER PTHR43601 THIOREDOXIN, MITOCHONDRIAL 30 130 0.00000
5 g7730.t7 PRINTS PR00421 Thioredoxin family signature 51 59 0.00001
6 g7730.t7 PRINTS PR00421 Thioredoxin family signature 59 68 0.00001
4 g7730.t7 PRINTS PR00421 Thioredoxin family signature 99 110 0.00001
1 g7730.t7 Pfam PF00085 Thioredoxin 34 132 0.00000
10 g7730.t7 ProSiteProfiles PS51352 Thioredoxin domain profile. 23 136 13.05100
7 g7730.t7 SUPERFAMILY SSF52833 Thioredoxin-like 33 134 0.00000
11 g7730.t7 TIGRFAM TIGR01068 thioredoxin: thioredoxin 36 133 0.00000

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

Pathway

  • This transcript belongs to the following pathways

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.

Raw TPM values