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_1 g11995 g11995.t5 TSS g11995.t5 20230944 20230944
chr_1 g11995 g11995.t5 isoform g11995.t5 20230993 20232567
chr_1 g11995 g11995.t5 exon g11995.t5.exon1 20230993 20231016
chr_1 g11995 g11995.t5 cds g11995.t5.CDS1 20230993 20231016
chr_1 g11995 g11995.t5 exon g11995.t5.exon2 20231627 20231767
chr_1 g11995 g11995.t5 cds g11995.t5.CDS2 20231627 20231767
chr_1 g11995 g11995.t5 exon g11995.t5.exon3 20231913 20232567
chr_1 g11995 g11995.t5 cds g11995.t5.CDS3 20231913 20232065
chr_1 g11995 g11995.t5 TTS g11995.t5 20232564 20232564

Sequences

>g11995.t5 Gene=g11995 Length=820
ATGGTGTACCTTATTAAGGATAAAGCTGATTTCGATGCACAACTTGAAAAAGCTGGAGAT
CTCTTGGTAATCGTAGATTTCTTCGCAACATGGTGCGGTCCATGTAAGATGATTGCTCCA
AAGCTCGAAGAATTTTCAAACACTTACAGCGATAAAATCGTTGTTGTTGACGTTGATGAA
TGCGAAGACTTGGCTGTTCAATACAATATTTCGTCCATGCCTACATTTGTTTTCATCAAG
AAAGGTCAGCAAATTGATAGTTTTTCCGGCGCCAATGCAGAAAAACTCGAAAAATATATT
ACTCAGCACACATCTTAAGTGAATCAATTACTTTACACAACAATAATATGAGAACATTTC
TCGTGCAGCAGTATTTTCAACAAGATCGAAACATCAATAATTTTATGGCCTTTTCAAAAA
CATACACACACTTAATTGAGACATATATTTAATATACATTTGAATGCTTTATTAAAAGTT
TTTCTCATAGAAAATGAAACAAACAATCTAAGCAGTTATATGAAATTGAATTTTAGACTT
GATTTGTTACACGAGAGGTTTTTTGTAATCTATGTTAATGTTAAAACCATTTTGTTTTAA
TTTAAAGTCTTTTTCTCTTTTAAGATCTTTTTCTATGAAATTTTTTGAACTTATTAAAAT
ACAAATTTTGATTAAGTAATTCCATACACAAAATGTTACTTTTATTCTTTTGAACATTTA
ATTCAATATGAAAAAACAGGTTTTTAGCAAATATTTTGTTAATCGATATAACACCATTTA
TTGAGTAATAAAATATTTATTCTGAAAAGAGAATGAGAAA

>g11995.t5 Gene=g11995 Length=105
MVYLIKDKADFDAQLEKAGDLLVIVDFFATWCGPCKMIAPKLEEFSNTYSDKIVVVDVDE
CEDLAVQYNISSMPTFVFIKKGQQIDSFSGANAEKLEKYITQHTS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g11995.t5 CDD cd02947 TRX_family 9 100 1.9221E-35
7 g11995.t5 Gene3D G3DSA:3.40.30.10 Glutaredoxin 1 105 6.8E-35
2 g11995.t5 PANTHER PTHR46115 THIOREDOXIN-LIKE PROTEIN 1 1 105 6.8E-42
8 g11995.t5 PIRSF PIRSF000077 Thioredoxin 1 104 1.5E-31
4 g11995.t5 PRINTS PR00421 Thioredoxin family signature 23 31 3.9E-8
5 g11995.t5 PRINTS PR00421 Thioredoxin family signature 31 40 3.9E-8
3 g11995.t5 PRINTS PR00421 Thioredoxin family signature 69 80 3.9E-8
1 g11995.t5 Pfam PF00085 Thioredoxin 6 101 2.4E-30
10 g11995.t5 ProSitePatterns PS00194 Thioredoxin family active site. 24 42 -
12 g11995.t5 ProSiteProfiles PS51352 Thioredoxin domain profile. 2 105 11.86
6 g11995.t5 SUPERFAMILY SSF52833 Thioredoxin-like 2 103 4.46E-33
11 g11995.t5 TIGRFAM TIGR01068 thioredoxin: thioredoxin 9 103 9.2E-30

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. There were no conditions that were differentially expressed