Gene loci information

Transcript annotation

  • This transcript has been annotated as Protein disulfide-isomerase A6.

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_2 g4631 g4631.t3 isoform g4631.t3 3794561 3796281
chr_2 g4631 g4631.t3 exon g4631.t3.exon1 3794561 3794735
chr_2 g4631 g4631.t3 TSS g4631.t3 3794570 3794570
chr_2 g4631 g4631.t3 cds g4631.t3.CDS1 3794714 3794735
chr_2 g4631 g4631.t3 exon g4631.t3.exon2 3794816 3794938
chr_2 g4631 g4631.t3 cds g4631.t3.CDS2 3794816 3794938
chr_2 g4631 g4631.t3 exon g4631.t3.exon3 3795230 3796281
chr_2 g4631 g4631.t3 cds g4631.t3.CDS3 3795230 3796281
chr_2 g4631 g4631.t3 TTS g4631.t3 3796427 3796427

Sequences

>g4631.t3 Gene=g4631 Length=1350
AACGAACCAAGTTGTCGTATACTCAAGTCGTGAATTGTCTAGACACAAATATATTTTTAA
AAATCATTTCCATTAGTTTTATATAAAGAAAAGAAGCAGCACAAGAATAAAACTCATAGT
TGTTTCTAATAGTCATAAGATAAACAAGTCATAATGTTAAATTTAAAGAGTTTTGGTTTA
CTATTACTATTAATTCAATTGTCTGTGGCATTATACGATTCTAAAGATGAGGTTGTTGAA
TTAACACCATCAAATTTCGATAGATTAGTTACAAAAGGCGATGAAGTTTGGATAGTAAGA
GCAGTTGATTGTGATCAACATAAAGAATTAGCTGGTCAATTCAATATCCGTGGTTTCCCA
ACGATCAAAATTTTCACTGGAAAACAATCGACTGATTATCAAGGACAGCGTGATGCTAAA
GGAATCGCTGAAGCAGGTCTAGCTGCAGCAAAGAAGAAGGTCAAAGAACAATTGGGCGAA
AAATCAAATGGAGGAAGCAGCAGCAGTGGTGGAAGTGATGACGTTGTTGAACTTACAGAA
TCAAACTTTAACAAATTAGTTCTTAATAGCGAAGATGTATGGTTTGTCGCTTTCATAGCT
CCTTGGTGTGGCCATTGTAAAAACTTACATCCAGAATGGGACAAAGCTGCAACTCAACTT
AAAGGAAAAGTTAAAGTTGGTCGTGTTGATGCTACTGTTGAACAATCATTAGCACAAAAA
TACGACATTAAAGGATTTCCTACTATCAAGATCTTTAAAGGAGGAAAGGTTGAAGATTAC
GAAGGAGGTCGCACTGCTAGCAGTATTGTCGAAACTGCTCTCACCTATTACACTGAAAAT
ATACCAACACCAGAAGTTTATGAGTTAATCTCAGAAGAGGCTGCCAAGAAAGCTTGTGAA
AATAAACCATTGTGTGTGATTTCAGTGCTTCCAAATATTTATGATTGCACAGCCACATGT
CGCAATGATTTATTGAAAATGTTGGCTGAACAAGCAGATAAATTTAAACAAAAGAATTGG
GGTTGGTTATGGACTGAGGGAGGAAAGCAATCGGCTGTTGAAGAAGCACTTGATATTGGT
GGATTCGGTTATCCTGCTATGGCTGCAGTAAATATCAAGAAAATGAAATACTCAATCCTA
CGTGGCTCATTCTCAAAGGATGGTGTATACGAATTCTTACGTGATTTATCATTCGGTCGT
GGAAATACTTCTCCAGTTAAAGGCGCTGAAATGCCAAAAATTAATACCCTTGAACCATGG
GATGGAAAAGATGGTGAGCCAATTCTAGAAGAAGACATTGATTTGTCTGATGTTGAACTT
GACGATCTCGATCCAAAAGATGAACTGTAA

>g4631.t3 Gene=g4631 Length=398
MLNLKSFGLLLLLIQLSVALYDSKDEVVELTPSNFDRLVTKGDEVWIVRAVDCDQHKELA
GQFNIRGFPTIKIFTGKQSTDYQGQRDAKGIAEAGLAAAKKKVKEQLGEKSNGGSSSSGG
SDDVVELTESNFNKLVLNSEDVWFVAFIAPWCGHCKNLHPEWDKAATQLKGKVKVGRVDA
TVEQSLAQKYDIKGFPTIKIFKGGKVEDYEGGRTASSIVETALTYYTENIPTPEVYELIS
EEAAKKACENKPLCVISVLPNIYDCTATCRNDLLKMLAEQADKFKQKNWGWLWTEGGKQS
AVEEALDIGGFGYPAMAAVNIKKMKYSILRGSFSKDGVYEFLRDLSFGRGNTSPVKGAEM
PKINTLEPWDGKDGEPILEEDIDLSDVELDDLDPKDEL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
25 g4631.t3 CDD cd03001 PDI_a_P5 123 223 1.41821E-58
26 g4631.t3 CDD cd02983 P5_C 233 361 1.9811E-64
18 g4631.t3 Gene3D G3DSA:3.40.30.10 Glutaredoxin 47 94 1.0E-12
19 g4631.t3 Gene3D G3DSA:3.40.30.10 Glutaredoxin 109 257 2.9E-40
6 g4631.t3 PANTHER PTHR45815 PROTEIN DISULFIDE-ISOMERASE A6 10 48 2.8E-111
10 g4631.t3 PANTHER PTHR45815:SF3 PROTEIN DISULFIDE-ISOMERASE A6 10 48 2.8E-111
5 g4631.t3 PANTHER PTHR45815 PROTEIN DISULFIDE-ISOMERASE A6 48 108 2.8E-111
9 g4631.t3 PANTHER PTHR45815:SF3 PROTEIN DISULFIDE-ISOMERASE A6 48 108 2.8E-111
4 g4631.t3 PANTHER PTHR45815 PROTEIN DISULFIDE-ISOMERASE A6 119 224 2.8E-111
8 g4631.t3 PANTHER PTHR45815:SF3 PROTEIN DISULFIDE-ISOMERASE A6 119 224 2.8E-111
3 g4631.t3 PANTHER PTHR45815 PROTEIN DISULFIDE-ISOMERASE A6 206 398 2.8E-111
7 g4631.t3 PANTHER PTHR45815:SF3 PROTEIN DISULFIDE-ISOMERASE A6 206 398 2.8E-111
12 g4631.t3 PRINTS PR00421 Thioredoxin family signature 143 151 1.6E-5
11 g4631.t3 PRINTS PR00421 Thioredoxin family signature 151 160 1.6E-5
13 g4631.t3 PRINTS PR00421 Thioredoxin family signature 191 202 1.6E-5
1 g4631.t3 Pfam PF00085 Thioredoxin 38 93 3.0E-7
2 g4631.t3 Pfam PF00085 Thioredoxin 124 221 2.2E-30
21 g4631.t3 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
22 g4631.t3 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 5 -
23 g4631.t3 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 6 14 -
24 g4631.t3 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
20 g4631.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 398 -
29 g4631.t3 ProSiteProfiles PS51352 Thioredoxin domain profile. 92 228 14.587
16 g4631.t3 SUPERFAMILY SSF52833 Thioredoxin-like 19 93 1.03E-13
14 g4631.t3 SUPERFAMILY SSF52833 Thioredoxin-like 120 224 4.5E-37
15 g4631.t3 SUPERFAMILY SSF52833 Thioredoxin-like 235 348 1.05E-8
17 g4631.t3 SignalP_EUK SignalP-noTM SignalP-noTM 1 19 -
27 g4631.t3 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 21 -
28 g4631.t3 TIGRFAM TIGR01126 pdi_dom: protein disulfide-isomerase domain 127 220 4.6E-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