Gene loci information

Transcript annotation

  • This transcript has been annotated as Protein disulfide-isomerase A6-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_2 g4631 g4631.t10 TSS g4631.t10 3794570 3794570
chr_2 g4631 g4631.t10 isoform g4631.t10 3794714 3796281
chr_2 g4631 g4631.t10 exon g4631.t10.exon1 3794714 3794735
chr_2 g4631 g4631.t10 cds g4631.t10.CDS1 3794714 3794735
chr_2 g4631 g4631.t10 exon g4631.t10.exon2 3794816 3794934
chr_2 g4631 g4631.t10 cds g4631.t10.CDS2 3794816 3794934
chr_2 g4631 g4631.t10 exon g4631.t10.exon3 3795145 3796281
chr_2 g4631 g4631.t10 cds g4631.t10.CDS3 3795145 3796281
chr_2 g4631 g4631.t10 TTS g4631.t10 3796427 3796427

Sequences

>g4631.t10 Gene=g4631 Length=1278
ATGTTAAATTTAAAGAGTTTTGGTTTACTATTACTATTAATTCAATTGTCTGTGGCATTA
TACGATTCTAAAGATGAGGTTGTTGAATTAACACCATCAAATTTCGATAGATTAGTTACA
AAAGGCGATGAAGTTTGGATAAATTTCACAATTAATAGTCATTGTAAAAGTTTAGCTCCT
GAATATAAGAAAGCTGCAAAGGCATTAAAGGGTGTAGTAAAAGTAGGAGCAGTTGATTGT
GATCAACATAAAGAATTAGCTGGTCAATTCAATATCCGTGGTTTCCCAACGATCAAAATT
TTCACTGGAAAACAATCGACTGATTATCAAGGACAGCGTGATGCTAAAGGAATCGCTGAA
GCAGGTCTAGCTGCAGCAAAGAAGAAGGTCAAAGAACAATTGGGCGAAAAATCAAATGGA
GGAAGCAGCAGCAGTGGTGGAAGTGATGACGTTGTTGAACTTACAGAATCAAACTTTAAC
AAATTAGTTCTTAATAGCGAAGATGTATGGTTTGTCGCTTTCATAGCTCCTTGGTGTGGC
CATTGTAAAAACTTACATCCAGAATGGGACAAAGCTGCAACTCAACTTAAAGGAAAAGTT
AAAGTTGGTCGTGTTGATGCTACTGTTGAACAATCATTAGCACAAAAATACGACATTAAA
GGATTTCCTACTATCAAGATCTTTAAAGGAGGAAAGGTTGAAGATTACGAAGGAGGTCGC
ACTGCTAGCAGTATTGTCGAAACTGCTCTCACCTATTACACTGAAAATATACCAACACCA
GAAGTTTATGAGTTAATCTCAGAAGAGGCTGCCAAGAAAGCTTGTGAAAATAAACCATTG
TGTGTGATTTCAGTGCTTCCAAATATTTATGATTGCACAGCCACATGTCGCAATGATTTA
TTGAAAATGTTGGCTGAACAAGCAGATAAATTTAAACAAAAGAATTGGGGTTGGTTATGG
ACTGAGGGAGGAAAGCAATCGGCTGTTGAAGAAGCACTTGATATTGGTGGATTCGGTTAT
CCTGCTATGGCTGCAGTAAATATCAAGAAAATGAAATACTCAATCCTACGTGGCTCATTC
TCAAAGGATGGTGTATACGAATTCTTACGTGATTTATCATTCGGTCGTGGAAATACTTCT
CCAGTTAAAGGCGCTGAAATGCCAAAAATTAATACCCTTGAACCATGGGATGGAAAAGAT
GGTGAGCCAATTCTAGAAGAAGACATTGATTTGTCTGATGTTGAACTTGACGATCTCGAT
CCAAAAGATGAACTGTAA

>g4631.t10 Gene=g4631 Length=425
MLNLKSFGLLLLLIQLSVALYDSKDEVVELTPSNFDRLVTKGDEVWINFTINSHCKSLAP
EYKKAAKALKGVVKVGAVDCDQHKELAGQFNIRGFPTIKIFTGKQSTDYQGQRDAKGIAE
AGLAAAKKKVKEQLGEKSNGGSSSSGGSDDVVELTESNFNKLVLNSEDVWFVAFIAPWCG
HCKNLHPEWDKAATQLKGKVKVGRVDATVEQSLAQKYDIKGFPTIKIFKGGKVEDYEGGR
TASSIVETALTYYTENIPTPEVYELISEEAAKKACENKPLCVISVLPNIYDCTATCRNDL
LKMLAEQADKFKQKNWGWLWTEGGKQSAVEEALDIGGFGYPAMAAVNIKKMKYSILRGSF
SKDGVYEFLRDLSFGRGNTSPVKGAEMPKINTLEPWDGKDGEPILEEDIDLSDVELDDLD
PKDEL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
23 g4631.t10 CDD cd03001 PDI_a_P5 150 250 6.01721E-58
24 g4631.t10 CDD cd02983 P5_C 260 388 8.31701E-64
17 g4631.t10 Gene3D G3DSA:3.40.30.10 Glutaredoxin 15 138 2.1E-29
16 g4631.t10 Gene3D G3DSA:3.40.30.10 Glutaredoxin 139 282 3.5E-40
5 g4631.t10 PANTHER PTHR45815 PROTEIN DISULFIDE-ISOMERASE A6 10 135 1.8E-131
8 g4631.t10 PANTHER PTHR45815:SF3 PROTEIN DISULFIDE-ISOMERASE A6 10 135 1.8E-131
3 g4631.t10 PANTHER PTHR45815 PROTEIN DISULFIDE-ISOMERASE A6 147 251 1.8E-131
6 g4631.t10 PANTHER PTHR45815:SF3 PROTEIN DISULFIDE-ISOMERASE A6 147 251 1.8E-131
4 g4631.t10 PANTHER PTHR45815 PROTEIN DISULFIDE-ISOMERASE A6 231 425 1.8E-131
7 g4631.t10 PANTHER PTHR45815:SF3 PROTEIN DISULFIDE-ISOMERASE A6 231 425 1.8E-131
9 g4631.t10 PRINTS PR00421 Thioredoxin family signature 170 178 1.9E-5
10 g4631.t10 PRINTS PR00421 Thioredoxin family signature 178 187 1.9E-5
11 g4631.t10 PRINTS PR00421 Thioredoxin family signature 218 229 1.9E-5
2 g4631.t10 Pfam PF00085 Thioredoxin 27 120 4.9E-19
1 g4631.t10 Pfam PF00085 Thioredoxin 151 248 2.5E-30
19 g4631.t10 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
20 g4631.t10 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 5 -
21 g4631.t10 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 6 14 -
22 g4631.t10 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
18 g4631.t10 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 425 -
27 g4631.t10 ProSiteProfiles PS51352 Thioredoxin domain profile. 119 255 14.587
14 g4631.t10 SUPERFAMILY SSF52833 Thioredoxin-like 19 120 1.2E-27
12 g4631.t10 SUPERFAMILY SSF52833 Thioredoxin-like 147 251 5.16E-37
13 g4631.t10 SUPERFAMILY SSF52833 Thioredoxin-like 262 375 1.17E-8
15 g4631.t10 SignalP_EUK SignalP-noTM SignalP-noTM 1 19 -
25 g4631.t10 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 21 -
26 g4631.t10 TIGRFAM TIGR01126 pdi_dom: protein disulfide-isomerase domain 154 247 5.1E-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