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.t17 TTS g10334.t17 8933125 8933125
chr_1 g10334 g10334.t17 isoform g10334.t17 8933413 8935590
chr_1 g10334 g10334.t17 exon g10334.t17.exon1 8933413 8933710
chr_1 g10334 g10334.t17 cds g10334.t17.CDS1 8933413 8933710
chr_1 g10334 g10334.t17 exon g10334.t17.exon2 8933766 8933942
chr_1 g10334 g10334.t17 cds g10334.t17.CDS2 8933766 8933942
chr_1 g10334 g10334.t17 exon g10334.t17.exon3 8934000 8934407
chr_1 g10334 g10334.t17 cds g10334.t17.CDS3 8934000 8934407
chr_1 g10334 g10334.t17 exon g10334.t17.exon4 8934468 8934696
chr_1 g10334 g10334.t17 cds g10334.t17.CDS4 8934468 8934679
chr_1 g10334 g10334.t17 exon g10334.t17.exon5 8934862 8934967
chr_1 g10334 g10334.t17 exon g10334.t17.exon6 8935028 8935088
chr_1 g10334 g10334.t17 exon g10334.t17.exon7 8935429 8935590
chr_1 g10334 g10334.t17 TSS g10334.t17 8935652 8935652

Sequences

>g10334.t17 Gene=g10334 Length=1441
ATGAAATTACTTGTTTTTCTGTCATTTTTGTTTGTTGCTGAGTTGGCTCTCTCGGCTGAG
AGTGATGTTCTTGAATTGACTGATTCTGATTTTGAAACTACAATCAAAGAATATCCAACA
GTGTTGGCAATGGTAATATAAAATAATAATTACAATAATATACTTAAACCAGAATATGCC
AAAGCAGCAGAATTGATGAGAACTGATGATCCTCCAATTACTCTTGTCAAAGTTGATTGT
ACAGAAGGCGGCAAGGATACTTGCAGCAAATTCGGTAAGTTTCGAGATTTCAAAATTGAA
AGTTGATTAAAAACAGTTGAAATTATTAAGTGGTATTGTGAAATATATGAGAGCACAAGT
TGGTCCATCATCAAAGGATCTTCTAACAGTTGAAGCATATGAAAAGTTCTTGGGTGTTCA
AGAGGGTGCCGTAGTTGGATTCTTTGAAAAAGAAACGGATTTGAAGACTGTTTTCTTAAA
ATATGCCGATTTGCAACGTGAGAAACTTCGCTTTGCACATTCAAGTGATCCAGAAATTCT
CAAGAAAGTTGGCGAAACAAACGCTATTCTTCTTTATCGTGCACCACAATTGAGTAATAA
GTTTGAACCATCTTTTGTTAAATTCACTGGAAAAGATTCAAGTGATCTTAAAGAATTTGT
TAAGAAGAACTTCCACGGTTTAGTTGGTGTACGTAGTCGTGATACTATTACTGATTTCAA
CAATCCATTGGTAACTGCATATTATGCTGTTGATTATATTAAAAATGCAAAAGGCACAAA
CTACTGGCGCAATCGTGTACTTAAAGTTGCCAAAGAATGGGAAGGTAAAATCAATTTTGC
TATTGCTGCTAAAGATGAATTCCAACATGAATTGAATGAATATGGTTACGATTATGTCGG
TGATAAACCAATAATTTTGGCTCGTGACGCTCAAAATCAAAAGTTCATCATGAAAGATGA
GTTTTCTGTTGACAATCTTCAAGCATTTGTCAATGATCTTTATGAAGGCAATCTGGAGCC
TTACGTTAAATCAGAAGCAATTCCAGTCGATCAAGATGGCCCAGTTACAGTTGTAGTTGC
AAAGAACTTTAATGAGGCTGTTCCAAAAGATAAGGATGTTTTAATCGAATTCTACGCACC
ATGGTGTGGTCATTGCAAAAAATTAGCTCCAACATTCGATGAATTAGGAACAAAATTGAA
GGGTGAAGATGTTGTTATTGCCAAAATGGATGCTACTGCAAACGATGTTCCTCCTCAATT
TGATGTTCGCGGATTCCCGACACTCTTCTGGTTGCCTAAGGGCGCTCATGATAAACCAGT
TAGATACGATGGCGGTCGTGAATTGAACGATTTTATCAGCTACATCAGTAAACACGCTAC
AAATGAATTAAAAGGATACGATCGCTCTGGAAACGAAAAGAAACAAAAGACAGAATTGTA
A

>g10334.t17 Gene=g10334 Length=364
MRAQVGPSSKDLLTVEAYEKFLGVQEGAVVGFFEKETDLKTVFLKYADLQREKLRFAHSS
DPEILKKVGETNAILLYRAPQLSNKFEPSFVKFTGKDSSDLKEFVKKNFHGLVGVRSRDT
ITDFNNPLVTAYYAVDYIKNAKGTNYWRNRVLKVAKEWEGKINFAIAAKDEFQHELNEYG
YDYVGDKPIILARDAQNQKFIMKDEFSVDNLQAFVNDLYEGNLEPYVKSEAIPVDQDGPV
TVVVAKNFNEAVPKDKDVLIEFYAPWCGHCKKLAPTFDELGTKLKGEDVVIAKMDATAND
VPPQFDVRGFPTLFWLPKGAHDKPVRYDGGRELNDFISYISKHATNELKGYDRSGNEKKQ
KTEL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g10334.t17 CDD cd03073 PDI_b’_ERp72_ERp57 113 218 2.92625E-38
15 g10334.t17 CDD cd02995 PDI_a_PDI_a’_C 239 340 9.95179E-51
12 g10334.t17 Gene3D G3DSA:3.40.30.10 Glutaredoxin 3 115 1.7E-30
13 g10334.t17 Gene3D G3DSA:3.40.30.10 Glutaredoxin 118 221 1.1E-34
11 g10334.t17 Gene3D G3DSA:3.40.30.10 Glutaredoxin 227 363 1.1E-40
3 g10334.t17 PANTHER PTHR18929:SF60 PROTEIN DISULFIDE-ISOMERASE 2 348 4.5E-105
4 g10334.t17 PANTHER PTHR18929 PROTEIN DISULFIDE ISOMERASE 2 348 4.5E-105
7 g10334.t17 PRINTS PR00421 Thioredoxin family signature 258 266 3.7E-6
6 g10334.t17 PRINTS PR00421 Thioredoxin family signature 266 275 3.7E-6
5 g10334.t17 PRINTS PR00421 Thioredoxin family signature 306 317 3.7E-6
1 g10334.t17 Pfam PF13848 Thioredoxin-like domain 34 217 1.8E-32
2 g10334.t17 Pfam PF00085 Thioredoxin 240 341 7.7E-28
16 g10334.t17 ProSitePatterns PS00194 Thioredoxin family active site. 259 277 -
18 g10334.t17 ProSiteProfiles PS51352 Thioredoxin domain profile. 218 345 15.679
8 g10334.t17 SUPERFAMILY SSF52833 Thioredoxin-like 10 109 5.47E-12
10 g10334.t17 SUPERFAMILY SSF52833 Thioredoxin-like 111 237 5.18E-17
9 g10334.t17 SUPERFAMILY SSF52833 Thioredoxin-like 204 344 2.34E-33
17 g10334.t17 TIGRFAM TIGR01126 pdi_dom: protein disulfide-isomerase domain 243 343 1.2E-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