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.t5 TTS g7730.t5 25590078 25590078
chr_2 g7730 g7730.t5 isoform g7730.t5 25590195 25590951
chr_2 g7730 g7730.t5 exon g7730.t5.exon1 25590195 25590350
chr_2 g7730 g7730.t5 cds g7730.t5.CDS1 25590195 25590350
chr_2 g7730 g7730.t5 exon g7730.t5.exon2 25590430 25590496
chr_2 g7730 g7730.t5 cds g7730.t5.CDS2 25590430 25590496
chr_2 g7730 g7730.t5 exon g7730.t5.exon3 25590552 25590801
chr_2 g7730 g7730.t5 cds g7730.t5.CDS3 25590552 25590724
chr_2 g7730 g7730.t5 exon g7730.t5.exon4 25590863 25590951
chr_2 g7730 g7730.t5 TSS g7730.t5 NA NA

Sequences

>g7730.t5 Gene=g7730 Length=562
TTTTGAAAGTTCAATTGTTGTCATTTCTTAAAGCTTATTTTAAATTGTATTAGAAGCTTT
TATCTAAAAGAAAAAGTTTTAATCATATTGAAAATAGAAATAGAAAATTTTCATCAAAAA
CAAAATAAGTTATAATTGTAAAATTTTAGCCATTTAAATTATCAAGATGCTTAGAAACAT
TGCAAAATTAAATATTACAAGAGCGATCATTAGTTCAGCACAAAGAAATGTTTCAACATC
ATCGAGATTGTTTGATATTTTCAAAGTGCAAGATGAGAAAGATTTTGAGGAGAGAGTACT
AAAATCTAAAAATGTTGTAGTCGTCGATTTCATGGCAACTTGGTGCAATCCGTGCAAAAT
GTTAGGACCGAGGATAGAAAAAGTCGTAGAAGAGAACAAAGGAAAGGTCGATATTGATGA
GCTAACTGATCTTTCACTTGAATATGGTGTTCAGGCAGTTCCCGTATTAGCAATCATTAA
GGATGGAAAGGTTCAAAAACAACTAATAGGTCTACAAGACGTTGATGTTATCAGAAAATT
TGTTAAGAGCAGCATCGAGTAG

>g7730.t5 Gene=g7730 Length=131
MLRNIAKLNITRAIISSAQRNVSTSSRLFDIFKVQDEKDFEERVLKSKNVVVVDFMATWC
NPCKMLGPRIEKVVEENKGKVDIDELTDLSLEYGVQAVPVLAIIKDGKVQKQLIGLQDVD
VIRKFVKSSIE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g7730.t5 CDD cd02947 TRX_family 38 127 0.0000000
8 g7730.t5 Gene3D G3DSA:3.40.30.10 Glutaredoxin 18 130 0.0000000
2 g7730.t5 PANTHER PTHR43601:SF3 THIOREDOXIN, MITOCHONDRIAL 30 125 0.0000000
3 g7730.t5 PANTHER PTHR43601 THIOREDOXIN, MITOCHONDRIAL 30 125 0.0000000
5 g7730.t5 PRINTS PR00421 Thioredoxin family signature 51 59 0.0000097
6 g7730.t5 PRINTS PR00421 Thioredoxin family signature 59 68 0.0000097
4 g7730.t5 PRINTS PR00421 Thioredoxin family signature 94 105 0.0000097
1 g7730.t5 Pfam PF00085 Thioredoxin 34 127 0.0000000
9 g7730.t5 ProSiteProfiles PS51352 Thioredoxin domain profile. 23 131 10.0330000
7 g7730.t5 SUPERFAMILY SSF52833 Thioredoxin-like 33 129 0.0000000

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.

Raw TPM values