Gene loci information

Transcript annotation

  • This transcript has been annotated as Thioredoxin domain-containing protein 5-like protein.

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 g13264 g13264.t5 TSS g13264.t5 28854926 28854926
chr_1 g13264 g13264.t5 isoform g13264.t5 28855024 28856734
chr_1 g13264 g13264.t5 exon g13264.t5.exon1 28855024 28855174
chr_1 g13264 g13264.t5 cds g13264.t5.CDS1 28855024 28855174
chr_1 g13264 g13264.t5 exon g13264.t5.exon2 28855628 28855967
chr_1 g13264 g13264.t5 cds g13264.t5.CDS2 28855628 28855967
chr_1 g13264 g13264.t5 exon g13264.t5.exon3 28856032 28856406
chr_1 g13264 g13264.t5 cds g13264.t5.CDS3 28856032 28856406
chr_1 g13264 g13264.t5 exon g13264.t5.exon4 28856464 28856734
chr_1 g13264 g13264.t5 cds g13264.t5.CDS4 28856464 28856734
chr_1 g13264 g13264.t5 TTS g13264.t5 28856971 28856971

Sequences

>g13264.t5 Gene=g13264 Length=1137
ATGAAACTTAAAGTGCTTGCATTTATTTTCTTGTTGATTTCCTGCACTATTGCGGATGAA
GAAGATAATAAAATTGAGGCTGAAGAAGAACCAGAAAAAGACCATACATTAGTTTTGACA
GATGAAAATTTTGATGACACCATCAAATCCACAGAAATGCTTAATACACAAGATGAAAGT
CGTGTGCGAATTGCAAAAGTTGATTGTACTGAAAATGCAAAAACATGCAGTGATAACGAA
ATTACAAGCTATCCAACATTGAAATTTTTCAAAGCAAATGGTGAAGAGCCTGTGAAATAT
CGTTCAACTCGTGATCTTCCTTCACTTACTCAATTTATCAACGATCAACTCGGAGCCTCA
ACAGAAGAAGAAGAAACAGGAAGTCAAGATGCAGTTCCAGCTCCTCTCACTGGTCTCATT
GAGCTTAATGAAAAGAATTTCCATGAGCTTACCTCAAAAGGGAAATTCTTTGTCAAATTT
TATGCACCATGGTGTGGTCATTGTCAGAAATTGTCACCAATTTGGAACGATTTAGCTTCA
GCATTGGAACATGATGAATCAGTAAATATCGCCAAGATTGATTGCACAGAACACAGACCA
ATTTGCAAAGACTTTGATGTCAAAGGATACCCCACTTTACTTTGGTTGGAAAATGGAAAG
AAAGTTGATAAATACAGTGGTTCACGCACGGTTGAAGACTTGAAAGATTATGTTGAAAAG
AGACTGAATACTAAATCAGAAGATACAGAGGAAAAGAAAGAAATTCCAGAAGAAGGTGAA
GGTGCAGCTGTACTTTCACTCTCAGGCGATTCATTTGAACAAGCTATTAAGGAAGATGTA
ACATTCATCAAATTTTTTGCACCTTGGTGTGGACATTGCAAGCGTATGATTCCCGCATGG
CATGAACTTGCTAAGAAATTTATTAATGACAGCAAAATTAAAATTGCAAAAGTTGATTGC
ACTCTTGCTGAAAATAGAGATTTATGTTCAGCACAAGATGTCAACGGATTTCCTACAATT
TTCATTTATAGAAATGGAGAAAAGGTTACAGAATACAATGGTGACAGAAGCTTAGAAGAT
ATGTATGACTTTGTCAAAAAGCATGCTTCAGGTGATGCTCCACGCGATGAATTGTAA

>g13264.t5 Gene=g13264 Length=378
MKLKVLAFIFLLISCTIADEEDNKIEAEEEPEKDHTLVLTDENFDDTIKSTEMLNTQDES
RVRIAKVDCTENAKTCSDNEITSYPTLKFFKANGEEPVKYRSTRDLPSLTQFINDQLGAS
TEEEETGSQDAVPAPLTGLIELNEKNFHELTSKGKFFVKFYAPWCGHCQKLSPIWNDLAS
ALEHDESVNIAKIDCTEHRPICKDFDVKGYPTLLWLENGKKVDKYSGSRTVEDLKDYVEK
RLNTKSEDTEEKKEIPEEGEGAAVLSLSGDSFEQAIKEDVTFIKFFAPWCGHCKRMIPAW
HELAKKFINDSKIKIAKVDCTLAENRDLCSAQDVNGFPTIFIYRNGEKVTEYNGDRSLED
MYDFVKKHASGDAPRDEL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g13264.t5 Gene3D G3DSA:3.40.30.10 Glutaredoxin 51 136 2.9E-15
14 g13264.t5 Gene3D G3DSA:3.40.30.10 Glutaredoxin 137 245 4.2E-38
13 g13264.t5 Gene3D G3DSA:3.40.30.10 Glutaredoxin 246 372 1.6E-39
4 g13264.t5 PANTHER PTHR45672 PROTEIN DISULFIDE-ISOMERASE C17H9.14C-RELATED 57 130 3.6E-98
5 g13264.t5 PANTHER PTHR45672 PROTEIN DISULFIDE-ISOMERASE C17H9.14C-RELATED 139 365 3.6E-98
7 g13264.t5 PRINTS PR00421 Thioredoxin family signature 156 164 1.4E-5
6 g13264.t5 PRINTS PR00421 Thioredoxin family signature 164 173 1.4E-5
8 g13264.t5 PRINTS PR00421 Thioredoxin family signature 333 344 1.4E-5
1 g13264.t5 Pfam PF00085 Thioredoxin 56 114 1.0E-9
3 g13264.t5 Pfam PF00085 Thioredoxin 140 239 2.5E-28
2 g13264.t5 Pfam PF00085 Thioredoxin 264 367 6.6E-27
17 g13264.t5 Phobius SIGNAL_PEPTIDE Signal peptide region 1 18 -
18 g13264.t5 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 4 -
19 g13264.t5 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 5 13 -
20 g13264.t5 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 14 18 -
16 g13264.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 19 378 -
23 g13264.t5 ProSitePatterns PS00194 Thioredoxin family active site. 157 175 -
22 g13264.t5 ProSitePatterns PS00194 Thioredoxin family active site. 282 300 -
27 g13264.t5 ProSiteProfiles PS51257 Prokaryotic membrane lipoprotein lipid attachment site profile. 1 15 6.0
25 g13264.t5 ProSiteProfiles PS51352 Thioredoxin domain profile. 128 243 15.414
26 g13264.t5 ProSiteProfiles PS51352 Thioredoxin domain profile. 253 370 16.612
11 g13264.t5 SUPERFAMILY SSF52833 Thioredoxin-like 29 118 3.04E-17
10 g13264.t5 SUPERFAMILY SSF52833 Thioredoxin-like 136 244 2.61E-35
9 g13264.t5 SUPERFAMILY SSF52833 Thioredoxin-like 253 369 8.44E-34
12 g13264.t5 SignalP_EUK SignalP-noTM SignalP-noTM 1 18 -
21 g13264.t5 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 18 -
24 g13264.t5 TIGRFAM TIGR01126 pdi_dom: protein disulfide-isomerase domain 142 241 1.1E-32

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:0003756 protein disulfide isomerase activity MF

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