General information for g10334.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein disulfide-isomerase A3.
Parent gene
- The parent gene g10334 is located on chr_1: 8934649..8935590 (- strand)
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.t3 | isoform | g10334.t3 | 8932910 | 8935590 |
| chr_1 | g10334 | g10334.t3 | exon | g10334.t3.exon1 | 8932910 | 8933710 |
| chr_1 | g10334 | g10334.t3 | cds | g10334.t3.CDS1 | 8933413 | 8933710 |
| chr_1 | g10334 | g10334.t3 | exon | g10334.t3.exon2 | 8933766 | 8933942 |
| chr_1 | g10334 | g10334.t3 | cds | g10334.t3.CDS2 | 8933766 | 8933942 |
| chr_1 | g10334 | g10334.t3 | exon | g10334.t3.exon3 | 8934000 | 8934407 |
| chr_1 | g10334 | g10334.t3 | cds | g10334.t3.CDS3 | 8934000 | 8934407 |
| chr_1 | g10334 | g10334.t3 | exon | g10334.t3.exon4 | 8934468 | 8934696 |
| chr_1 | g10334 | g10334.t3 | cds | g10334.t3.CDS4 | 8934468 | 8934696 |
| chr_1 | g10334 | g10334.t3 | exon | g10334.t3.exon5 | 8934759 | 8934836 |
| chr_1 | g10334 | g10334.t3 | cds | g10334.t3.CDS5 | 8934759 | 8934836 |
| chr_1 | g10334 | g10334.t3 | exon | g10334.t3.exon6 | 8934917 | 8934967 |
| chr_1 | g10334 | g10334.t3 | cds | g10334.t3.CDS6 | 8934917 | 8934967 |
| chr_1 | g10334 | g10334.t3 | exon | g10334.t3.exon7 | 8935028 | 8935088 |
| chr_1 | g10334 | g10334.t3 | cds | g10334.t3.CDS7 | 8935028 | 8935055 |
| chr_1 | g10334 | g10334.t3 | exon | g10334.t3.exon8 | 8935429 | 8935590 |
| chr_1 | g10334 | g10334.t3 | TSS | g10334.t3 | 8935652 | 8935652 |
| chr_1 | g10334 | g10334.t3 | TTS | g10334.t3 | NA | NA |
Sequences
>g10334.t3 Gene=g10334 Length=1967
ATGAAATTACTTGTTTTTCTGTCATTTTTGTTTGTTGCTGAGTTGGCTCTCTCGGCTGAG
AGTGATGTTCTTGAATTGACTGATTCTGATTTTGAAACTACAATCAAAGAATATCCAACA
GTGTTGGCAATGGTAATATAAAATAATAATTACAATAATATACTTAAACCAGAATATGCC
AAAGCAGCAGAATTGATGAGAACTGATGATCCTCCAATTACTCTTGTCAAAGTTGATTGT
ACAGAAGGCGGCAAGGATACTTGCAGCAAATTCGGTGTTTCTGGATATCCCACTCTCAAA
ATTTTCAGAAACGGTGAAAATCCTCAGGATTATAATGGTCCACGTGAAGCAAGTGGTATT
GTGAAATATATGAGAGCACAAGTTGGTCCATCATCAAAGGATCTTCTAACAGTTGAAGCA
TATGAAAAGTTCTTGGGTGTTCAAGAGGGTGCCGTAGTTGGATTCTTTGAAAAAGAAACG
GATTTGAAGACTGTTTTCTTAAAATATGCCGATTTGCAACGTGAGAAACTTCGCTTTGCA
CATTCAAGTGATCCAGAAATTCTCAAGAAAGTTGGCGAAACAAACGCTATTCTTCTTTAT
CGTGCACCACAATTGAGTAATAAGTTTGAACCATCTTTTGTTAAATTCACTGGAAAAGAT
TCAAGTGATCTTAAAGAATTTGTTAAGAAGAACTTCCACGGTTTAGTTGGTGTACGTAGT
CGTGATACTATTACTGATTTCAACAATCCATTGGTAACTGCATATTATGCTGTTGATTAT
ATTAAAAATGCAAAAGGCACAAACTACTGGCGCAATCGTGTACTTAAAGTTGCCAAAGAA
TGGGAAGGTAAAATCAATTTTGCTATTGCTGCTAAAGATGAATTCCAACATGAATTGAAT
GAATATGGTTACGATTATGTCGGTGATAAACCAATAATTTTGGCTCGTGACGCTCAAAAT
CAAAAGTTCATCATGAAAGATGAGTTTTCTGTTGACAATCTTCAAGCATTTGTCAATGAT
CTTTATGAAGGCAATCTGGAGCCTTACGTTAAATCAGAAGCAATTCCAGTCGATCAAGAT
GGCCCAGTTACAGTTGTAGTTGCAAAGAACTTTAATGAGGCTGTTCCAAAAGATAAGGAT
GTTTTAATCGAATTCTACGCACCATGGTGTGGTCATTGCAAAAAATTAGCTCCAACATTC
GATGAATTAGGAACAAAATTGAAGGGTGAAGATGTTGTTATTGCCAAAATGGATGCTACT
GCAAACGATGTTCCTCCTCAATTTGATGTTCGCGGATTCCCGACACTCTTCTGGTTGCCT
AAGGGCGCTCATGATAAACCAGTTAGATACGATGGCGGTCGTGAATTGAACGATTTTATC
AGCTACATCAGTAAACACGCTACAAATGAATTAAAAGGATACGATCGCTCTGGAAACGAA
AAGAAACAAAAGACAGAATTGTAATCTCATTAATTTCATTACAGTAGTATAAAACACATT
TTCCATCGATTTTTTTAAGCAGTACTCTTTAAGAATAAAAAATTACCTAGAATTCATTAA
TGAAAAAATAATTTTTAATAATCTGCTATTTCCATTTTTTTAATAAAAAAAATTGTAACA
TTAAAATTTTAAATTTTTGTGATTTGTAAAAGCATTTTTGTGTTATCACGCAATGTCATT
TGTCAGGTTTATAAAAATGTCATTTTAATTCAATAAAAAAATTAATACAACAATAAAGTA
CATTACGAACGTAAAAAACTTTTTCTAACTGAAATGTAAAACAACTCTACCATAATTATA
TGAACTGAAAAAGTTTATTTCATAAGAAAGGAATGATGAACATAACGTTTTTTTAGATAA
TTTTATTAATTTTTATTGGTTTTTTTTATCATTATTTTAATTTTTTTAGCAGATGCTAAA
ACGTGATCTTGCAGATTTTATTAAAGGAAGAAATAAAAATATACTAG
>g10334.t3 Gene=g10334 Length=422
MRTDDPPITLVKVDCTEGGKDTCSKFGVSGYPTLKIFRNGENPQDYNGPREASGIVKYMR
AQVGPSSKDLLTVEAYEKFLGVQEGAVVGFFEKETDLKTVFLKYADLQREKLRFAHSSDP
EILKKVGETNAILLYRAPQLSNKFEPSFVKFTGKDSSDLKEFVKKNFHGLVGVRSRDTIT
DFNNPLVTAYYAVDYIKNAKGTNYWRNRVLKVAKEWEGKINFAIAAKDEFQHELNEYGYD
YVGDKPIILARDAQNQKFIMKDEFSVDNLQAFVNDLYEGNLEPYVKSEAIPVDQDGPVTV
VVAKNFNEAVPKDKDVLIEFYAPWCGHCKKLAPTFDELGTKLKGEDVVIAKMDATANDVP
PQFDVRGFPTLFWLPKGAHDKPVRYDGGRELNDFISYISKHATNELKGYDRSGNEKKQKT
EL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g10334.t3 | CDD | cd02961 | PDI_a_family | 4 | 59 | 2.70409E-16 |
| 17 | g10334.t3 | CDD | cd03073 | PDI_b’_ERp72_ERp57 | 171 | 276 | 1.72303E-38 |
| 19 | g10334.t3 | CDD | cd02995 | PDI_a_PDI_a’_C | 297 | 398 | 1.61112E-50 |
| 16 | g10334.t3 | Gene3D | G3DSA:3.40.30.10 | Glutaredoxin | 1 | 63 | 2.6E-16 |
| 13 | g10334.t3 | Gene3D | G3DSA:3.40.30.10 | Glutaredoxin | 64 | 173 | 2.2E-30 |
| 15 | g10334.t3 | Gene3D | G3DSA:3.40.30.10 | Glutaredoxin | 176 | 279 | 1.4E-34 |
| 14 | g10334.t3 | Gene3D | G3DSA:3.40.30.10 | Glutaredoxin | 285 | 421 | 1.5E-40 |
| 4 | g10334.t3 | PANTHER | PTHR18929:SF60 | PROTEIN DISULFIDE-ISOMERASE | 8 | 406 | 4.3E-129 |
| 5 | g10334.t3 | PANTHER | PTHR18929 | PROTEIN DISULFIDE ISOMERASE | 8 | 406 | 4.3E-129 |
| 8 | g10334.t3 | PRINTS | PR00421 | Thioredoxin family signature | 316 | 324 | 5.4E-6 |
| 7 | g10334.t3 | PRINTS | PR00421 | Thioredoxin family signature | 324 | 333 | 5.4E-6 |
| 6 | g10334.t3 | PRINTS | PR00421 | Thioredoxin family signature | 364 | 375 | 5.4E-6 |
| 2 | g10334.t3 | Pfam | PF00085 | Thioredoxin | 7 | 60 | 9.6E-11 |
| 1 | g10334.t3 | Pfam | PF13848 | Thioredoxin-like domain | 92 | 275 | 2.6E-32 |
| 3 | g10334.t3 | Pfam | PF00085 | Thioredoxin | 298 | 399 | 1.0E-27 |
| 20 | g10334.t3 | ProSitePatterns | PS00194 | Thioredoxin family active site. | 317 | 335 | - |
| 23 | g10334.t3 | ProSiteProfiles | PS51352 | Thioredoxin domain profile. | 276 | 403 | 15.679 |
| 12 | g10334.t3 | SUPERFAMILY | SSF52833 | Thioredoxin-like | 4 | 64 | 1.31E-13 |
| 11 | g10334.t3 | SUPERFAMILY | SSF52833 | Thioredoxin-like | 68 | 167 | 7.21E-12 |
| 10 | g10334.t3 | SUPERFAMILY | SSF52833 | Thioredoxin-like | 169 | 295 | 7.94E-17 |
| 9 | g10334.t3 | SUPERFAMILY | SSF52833 | Thioredoxin-like | 262 | 402 | 3.43E-33 |
| 21 | g10334.t3 | TIGRFAM | TIGR01130 | ER_PDI_fam: protein disulfide isomerase | 3 | 421 | 3.5E-133 |
| 22 | g10334.t3 | TIGRFAM | TIGR01126 | pdi_dom: protein disulfide-isomerase domain | 301 | 401 | 1.5E-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.
