Gene loci information

Transcript annotation

  • This transcript has been annotated as Protein disulfide-isomerase A3.

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 g10334 g10334.t27 TTS g10334.t27 8933125 8933125
chr_1 g10334 g10334.t27 isoform g10334.t27 8933413 8935590
chr_1 g10334 g10334.t27 exon g10334.t27.exon1 8933413 8933710
chr_1 g10334 g10334.t27 cds g10334.t27.CDS1 8933413 8933710
chr_1 g10334 g10334.t27 exon g10334.t27.exon2 8933766 8933942
chr_1 g10334 g10334.t27 cds g10334.t27.CDS2 8933766 8933942
chr_1 g10334 g10334.t27 exon g10334.t27.exon3 8934000 8934407
chr_1 g10334 g10334.t27 cds g10334.t27.CDS3 8934000 8934407
chr_1 g10334 g10334.t27 exon g10334.t27.exon4 8934468 8934649
chr_1 g10334 g10334.t27 cds g10334.t27.CDS4 8934468 8934649
chr_1 g10334 g10334.t27 exon g10334.t27.exon5 8934759 8934836
chr_1 g10334 g10334.t27 cds g10334.t27.CDS5 8934759 8934776
chr_1 g10334 g10334.t27 exon g10334.t27.exon6 8934917 8934967
chr_1 g10334 g10334.t27 exon g10334.t27.exon7 8935028 8935106
chr_1 g10334 g10334.t27 exon g10334.t27.exon8 8935459 8935590
chr_1 g10334 g10334.t27 TSS g10334.t27 8935652 8935652

Sequences

>g10334.t27 Gene=g10334 Length=1405
ATGAAATTACTTGTTTTTCTGTCATTTTTGTTTGTTGCTGAGTTGGCTCTCTCGGCTGAG
AGTGATGTTCTTGAATTGACTGATTCTGATTTTGAAACTACAATCAAAGAATATCCAACA
GTGTTGGCAATGTTCCACGTATACGTATAGCTTAAACCAGAATATGCCAAAGCAGCAGAA
TTGATGAGAACTGATGATCCTCCAATTACTCTTGTCAAAGTTGATTGTACAGAAGGCGGC
AAGGATACTTGCAGCAAATTCGGTGTTTCTGGATATCCCACTCTCAAAATTTTCAGAAAC
GGTGAAAATCCTCAGGATTATAATGGTCCACGTGAAGCAAGATCTTCTAACAGTTGAAGC
ATATGAAAAGTTCTTGGGTGTTCAAGAGGGTGCCGTAGTTGGATTCTTTGAAAAAGAAAC
GGATTTGAAGACTGTTTTCTTAAAATATGCCGATTTGCAACGTGAGAAACTTCGCTTTGC
ACATTCAAGTGATCCAGAAATTCTCAAGAAAGTTGGCGAAACAAACGCTATTCTTCTTTA
TCGTGCACCACAATTGAGTAATAAGTTTGAACCATCTTTTGTTAAATTCACTGGAAAAGA
TTCAAGTGATCTTAAAGAATTTGTTAAGAAGAACTTCCACGGTTTAGTTGGTGTACGTAG
TCGTGATACTATTACTGATTTCAACAATCCATTGGTAACTGCATATTATGCTGTTGATTA
TATTAAAAATGCAAAAGGCACAAACTACTGGCGCAATCGTGTACTTAAAGTTGCCAAAGA
ATGGGAAGGTAAAATCAATTTTGCTATTGCTGCTAAAGATGAATTCCAACATGAATTGAA
TGAATATGGTTACGATTATGTCGGTGATAAACCAATAATTTTGGCTCGTGACGCTCAAAA
TCAAAAGTTCATCATGAAAGATGAGTTTTCTGTTGACAATCTTCAAGCATTTGTCAATGA
TCTTTATGAAGGCAATCTGGAGCCTTACGTTAAATCAGAAGCAATTCCAGTCGATCAAGA
TGGCCCAGTTACAGTTGTAGTTGCAAAGAACTTTAATGAGGCTGTTCCAAAAGATAAGGA
TGTTTTAATCGAATTCTACGCACCATGGTGTGGTCATTGCAAAAAATTAGCTCCAACATT
CGATGAATTAGGAACAAAATTGAAGGGTGAAGATGTTGTTATTGCCAAAATGGATGCTAC
TGCAAACGATGTTCCTCCTCAATTTGATGTTCGCGGATTCCCGACACTCTTCTGGTTGCC
TAAGGGCGCTCATGATAAACCAGTTAGATACGATGGCGGTCGTGAATTGAACGATTTTAT
CAGCTACATCAGTAAACACGCTACAAATGAATTAAAAGGATACGATCGCTCTGGAAACGA
AAAGAAACAAAAGACAGAATTGTAA

>g10334.t27 Gene=g10334 Length=360
MVHVKQDLLTVEAYEKFLGVQEGAVVGFFEKETDLKTVFLKYADLQREKLRFAHSSDPEI
LKKVGETNAILLYRAPQLSNKFEPSFVKFTGKDSSDLKEFVKKNFHGLVGVRSRDTITDF
NNPLVTAYYAVDYIKNAKGTNYWRNRVLKVAKEWEGKINFAIAAKDEFQHELNEYGYDYV
GDKPIILARDAQNQKFIMKDEFSVDNLQAFVNDLYEGNLEPYVKSEAIPVDQDGPVTVVV
AKNFNEAVPKDKDVLIEFYAPWCGHCKKLAPTFDELGTKLKGEDVVIAKMDATANDVPPQ
FDVRGFPTLFWLPKGAHDKPVRYDGGRELNDFISYISKHATNELKGYDRSGNEKKQKTEL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g10334.t27 CDD cd03073 PDI_b’_ERp72_ERp57 109 214 3.97745E-38
15 g10334.t27 CDD cd02995 PDI_a_PDI_a’_C 235 336 1.92429E-50
11 g10334.t27 Gene3D G3DSA:3.40.30.10 Glutaredoxin 4 111 2.5E-27
13 g10334.t27 Gene3D G3DSA:3.40.30.10 Glutaredoxin 113 217 9.4E-35
12 g10334.t27 Gene3D G3DSA:3.40.30.10 Glutaredoxin 223 359 1.1E-40
3 g10334.t27 PANTHER PTHR18929:SF60 PROTEIN DISULFIDE-ISOMERASE 7 344 4.7E-102
4 g10334.t27 PANTHER PTHR18929 PROTEIN DISULFIDE ISOMERASE 7 344 4.7E-102
5 g10334.t27 PRINTS PR00421 Thioredoxin family signature 254 262 3.6E-6
7 g10334.t27 PRINTS PR00421 Thioredoxin family signature 262 271 3.6E-6
6 g10334.t27 PRINTS PR00421 Thioredoxin family signature 302 313 3.6E-6
1 g10334.t27 Pfam PF13848 Thioredoxin-like domain 30 213 1.8E-32
2 g10334.t27 Pfam PF00085 Thioredoxin 236 337 7.6E-28
16 g10334.t27 ProSitePatterns PS00194 Thioredoxin family active site. 255 273 -
18 g10334.t27 ProSiteProfiles PS51352 Thioredoxin domain profile. 214 341 15.679
10 g10334.t27 SUPERFAMILY SSF52833 Thioredoxin-like 8 105 8.7E-12
9 g10334.t27 SUPERFAMILY SSF52833 Thioredoxin-like 107 233 5.18E-17
8 g10334.t27 SUPERFAMILY SSF52833 Thioredoxin-like 200 340 2.34E-33
17 g10334.t27 TIGRFAM TIGR01126 pdi_dom: protein disulfide-isomerase domain 239 339 1.1E-34

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

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