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.t1 TSS g13264.t1 28854926 28854926
chr_1 g13264 g13264.t1 isoform g13264.t1 28855024 28856734
chr_1 g13264 g13264.t1 exon g13264.t1.exon1 28855024 28855211
chr_1 g13264 g13264.t1 cds g13264.t1.CDS1 28855024 28855211
chr_1 g13264 g13264.t1 exon g13264.t1.exon2 28855584 28855967
chr_1 g13264 g13264.t1 cds g13264.t1.CDS2 28855584 28855967
chr_1 g13264 g13264.t1 exon g13264.t1.exon3 28856032 28856406
chr_1 g13264 g13264.t1 cds g13264.t1.CDS3 28856032 28856406
chr_1 g13264 g13264.t1 exon g13264.t1.exon4 28856464 28856734
chr_1 g13264 g13264.t1 cds g13264.t1.CDS4 28856464 28856734
chr_1 g13264 g13264.t1 TTS g13264.t1 28856971 28856971

Sequences

>g13264.t1 Gene=g13264 Length=1218
ATGAAACTTAAAGTGCTTGCATTTATTTTCTTGTTGATTTCCTGCACTATTGCGGATGAA
GAAGATAATAAAATTGAGGCTGAAGAAGAACCAGAAAAAGACCATACATTAGTTTTGACA
GATGAAAATTTTGATGACACCATCAAATCCAGTGAAACAGCAATTTTTACAATGTTTTAT
GCACCATGGTGTGGACACTGTACAAGATTAAAGCCTACATGGTCACAATTAGCAGAAATG
CTTAATACACAAGATGAAAGTCGTGTGCGAATTGCAAAAGTTGATTGTACTGAAAATGCA
AAAACATGCAGTGATAACGAAATTACAAGCTATCCAACATTGAAATTTTTCAAAGCAAAT
GGTGAAGAGCCTGTGAAATATCGTTCAACTCGTGATCTTCCTTCACTTACTCAATTTATC
AACGATCAACTCGGAGCCTCAACAGAAGAAGAAGAAACAGGAAGTCAAGATGCAGTTCCA
GCTCCTCTCACTGGTCTCATTGAGCTTAATGAAAAGAATTTCCATGAGCTTACCTCAAAA
GGGAAATTCTTTGTCAAATTTTATGCACCATGGTGTGGTCATTGTCAGAAATTGTCACCA
ATTTGGAACGATTTAGCTTCAGCATTGGAACATGATGAATCAGTAAATATCGCCAAGATT
GATTGCACAGAACACAGACCAATTTGCAAAGACTTTGATGTCAAAGGATACCCCACTTTA
CTTTGGTTGGAAAATGGAAAGAAAGTTGATAAATACAGTGGTTCACGCACGGTTGAAGAC
TTGAAAGATTATGTTGAAAAGAGACTGAATACTAAATCAGAAGATACAGAGGAAAAGAAA
GAAATTCCAGAAGAAGGTGAAGGTGCAGCTGTACTTTCACTCTCAGGCGATTCATTTGAA
CAAGCTATTAAGGAAGATGTAACATTCATCAAATTTTTTGCACCTTGGTGTGGACATTGC
AAGCGTATGATTCCCGCATGGCATGAACTTGCTAAGAAATTTATTAATGACAGCAAAATT
AAAATTGCAAAAGTTGATTGCACTCTTGCTGAAAATAGAGATTTATGTTCAGCACAAGAT
GTCAACGGATTTCCTACAATTTTCATTTATAGAAATGGAGAAAAGGTTACAGAATACAAT
GGTGACAGAAGCTTAGAAGATATGTATGACTTTGTCAAAAAGCATGCTTCAGGTGATGCT
CCACGCGATGAATTGTAA

>g13264.t1 Gene=g13264 Length=405
MKLKVLAFIFLLISCTIADEEDNKIEAEEEPEKDHTLVLTDENFDDTIKSSETAIFTMFY
APWCGHCTRLKPTWSQLAEMLNTQDESRVRIAKVDCTENAKTCSDNEITSYPTLKFFKAN
GEEPVKYRSTRDLPSLTQFINDQLGASTEEEETGSQDAVPAPLTGLIELNEKNFHELTSK
GKFFVKFYAPWCGHCQKLSPIWNDLASALEHDESVNIAKIDCTEHRPICKDFDVKGYPTL
LWLENGKKVDKYSGSRTVEDLKDYVEKRLNTKSEDTEEKKEIPEEGEGAAVLSLSGDSFE
QAIKEDVTFIKFFAPWCGHCKRMIPAWHELAKKFINDSKIKIAKVDCTLAENRDLCSAQD
VNGFPTIFIYRNGEKVTEYNGDRSLEDMYDFVKKHASGDAPRDEL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g13264.t1 Gene3D G3DSA:3.40.30.10 Glutaredoxin 15 161 2.1E-39
15 g13264.t1 Gene3D G3DSA:3.40.30.10 Glutaredoxin 163 272 4.7E-38
14 g13264.t1 Gene3D G3DSA:3.40.30.10 Glutaredoxin 273 399 1.8E-39
5 g13264.t1 PANTHER PTHR45672 PROTEIN DISULFIDE-ISOMERASE C17H9.14C-RELATED 32 156 3.0E-119
4 g13264.t1 PANTHER PTHR45672 PROTEIN DISULFIDE-ISOMERASE C17H9.14C-RELATED 166 392 3.0E-119
7 g13264.t1 PRINTS PR00421 Thioredoxin family signature 183 191 1.6E-5
8 g13264.t1 PRINTS PR00421 Thioredoxin family signature 191 200 1.6E-5
6 g13264.t1 PRINTS PR00421 Thioredoxin family signature 360 371 1.6E-5
2 g13264.t1 Pfam PF00085 Thioredoxin 36 141 1.7E-26
3 g13264.t1 Pfam PF00085 Thioredoxin 167 266 2.9E-28
1 g13264.t1 Pfam PF00085 Thioredoxin 291 394 7.6E-27
17 g13264.t1 Phobius SIGNAL_PEPTIDE Signal peptide region 1 18 -
18 g13264.t1 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 4 -
19 g13264.t1 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 5 13 -
20 g13264.t1 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 14 18 -
16 g13264.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 19 405 -
22 g13264.t1 ProSitePatterns PS00194 Thioredoxin family active site. 56 74 -
24 g13264.t1 ProSitePatterns PS00194 Thioredoxin family active site. 184 202 -
23 g13264.t1 ProSitePatterns PS00194 Thioredoxin family active site. 309 327 -
30 g13264.t1 ProSiteProfiles PS51257 Prokaryotic membrane lipoprotein lipid attachment site profile. 1 15 6.0
29 g13264.t1 ProSiteProfiles PS51352 Thioredoxin domain profile. 26 145 12.879
28 g13264.t1 ProSiteProfiles PS51352 Thioredoxin domain profile. 155 270 15.414
27 g13264.t1 ProSiteProfiles PS51352 Thioredoxin domain profile. 280 397 16.612
10 g13264.t1 SUPERFAMILY SSF52833 Thioredoxin-like 29 145 5.4E-34
11 g13264.t1 SUPERFAMILY SSF52833 Thioredoxin-like 163 271 3.08E-35
9 g13264.t1 SUPERFAMILY SSF52833 Thioredoxin-like 279 396 9.14E-34
12 g13264.t1 SignalP_EUK SignalP-noTM SignalP-noTM 1 18 -
21 g13264.t1 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 18 -
25 g13264.t1 TIGRFAM TIGR01126 pdi_dom: protein disulfide-isomerase domain 39 143 3.5E-32
26 g13264.t1 TIGRFAM TIGR01126 pdi_dom: protein disulfide-isomerase domain 169 268 1.2E-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.

Raw TPM values