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.t2 isoform g4631.t2 3790785 3796281
chr_2 g4631 g4631.t2 exon g4631.t2.exon1 3790785 3790819
chr_2 g4631 g4631.t2 exon g4631.t2.exon2 3794561 3794735
chr_2 g4631 g4631.t2 cds g4631.t2.CDS1 3794714 3794735
chr_2 g4631 g4631.t2 exon g4631.t2.exon3 3794816 3794938
chr_2 g4631 g4631.t2 cds g4631.t2.CDS2 3794816 3794938
chr_2 g4631 g4631.t2 exon g4631.t2.exon4 3795146 3796281
chr_2 g4631 g4631.t2 cds g4631.t2.CDS3 3795146 3796281
chr_2 g4631 g4631.t2 TTS g4631.t2 3796427 3796427
chr_2 g4631 g4631.t2 TSS g4631.t2 NA NA

Sequences

>g4631.t2 Gene=g4631 Length=1469
TAAAATTAGAAAAATTTAACTGATTGGTTGGAGATAACGAACCAAGTTGTCGTATACTCA
AGTCGTGAATTGTCTAGACACAAATATATTTTTAAAAATCATTTCCATTAGTTTTATATA
AAGAAAAGAAGCAGCACAAGAATAAAACTCATAGTTGTTTCTAATAGTCATAAGATAAAC
AAGTCATAATGTTAAATTTAAAGAGTTTTGGTTTACTATTACTATTAATTCAATTGTCTG
TGGCATTATACGATTCTAAAGATGAGGTTGTTGAATTAACACCATCAAATTTCGATAGAT
TAGTTACAAAAGGCGATGAAGTTTGGATAGTAAATTTCACAATTAATAGTCATTGTAAAA
GTTTAGCTCCTGAATATAAGAAAGCTGCAAAGGCATTAAAGGGTGTAGTAAAAGTAGGAG
CAGTTGATTGTGATCAACATAAAGAATTAGCTGGTCAATTCAATATCCGTGGTTTCCCAA
CGATCAAAATTTTCACTGGAAAACAATCGACTGATTATCAAGGACAGCGTGATGCTAAAG
GAATCGCTGAAGCAGGTCTAGCTGCAGCAAAGAAGAAGGTCAAAGAACAATTGGGCGAAA
AATCAAATGGAGGAAGCAGCAGCAGTGGTGGAAGTGATGACGTTGTTGAACTTACAGAAT
CAAACTTTAACAAATTAGTTCTTAATAGCGAAGATGTATGGTTTGTCGCTTTCATAGCTC
CTTGGTGTGGCCATTGTAAAAACTTACATCCAGAATGGGACAAAGCTGCAACTCAACTTA
AAGGAAAAGTTAAAGTTGGTCGTGTTGATGCTACTGTTGAACAATCATTAGCACAAAAAT
ACGACATTAAAGGATTTCCTACTATCAAGATCTTTAAAGGAGGAAAGGTTGAAGATTACG
AAGGAGGTCGCACTGCTAGCAGTATTGTCGAAACTGCTCTCACCTATTACACTGAAAATA
TACCAACACCAGAAGTTTATGAGTTAATCTCAGAAGAGGCTGCCAAGAAAGCTTGTGAAA
ATAAACCATTGTGTGTGATTTCAGTGCTTCCAAATATTTATGATTGCACAGCCACATGTC
GCAATGATTTATTGAAAATGTTGGCTGAACAAGCAGATAAATTTAAACAAAAGAATTGGG
GTTGGTTATGGACTGAGGGAGGAAAGCAATCGGCTGTTGAAGAAGCACTTGATATTGGTG
GATTCGGTTATCCTGCTATGGCTGCAGTAAATATCAAGAAAATGAAATACTCAATCCTAC
GTGGCTCATTCTCAAAGGATGGTGTATACGAATTCTTACGTGATTTATCATTCGGTCGTG
GAAATACTTCTCCAGTTAAAGGCGCTGAAATGCCAAAAATTAATACCCTTGAACCATGGG
ATGGAAAAGATGGTGAGCCAATTCTAGAAGAAGACATTGATTTGTCTGATGTTGAACTTG
ACGATCTCGATCCAAAAGATGAACTGTAA

>g4631.t2 Gene=g4631 Length=426
MLNLKSFGLLLLLIQLSVALYDSKDEVVELTPSNFDRLVTKGDEVWIVNFTINSHCKSLA
PEYKKAAKALKGVVKVGAVDCDQHKELAGQFNIRGFPTIKIFTGKQSTDYQGQRDAKGIA
EAGLAAAKKKVKEQLGEKSNGGSSSSGGSDDVVELTESNFNKLVLNSEDVWFVAFIAPWC
GHCKNLHPEWDKAATQLKGKVKVGRVDATVEQSLAQKYDIKGFPTIKIFKGGKVEDYEGG
RTASSIVETALTYYTENIPTPEVYELISEEAAKKACENKPLCVISVLPNIYDCTATCRND
LLKMLAEQADKFKQKNWGWLWTEGGKQSAVEEALDIGGFGYPAMAAVNIKKMKYSILRGS
FSKDGVYEFLRDLSFGRGNTSPVKGAEMPKINTLEPWDGKDGEPILEEDIDLSDVELDDL
DPKDEL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
23 g4631.t2 CDD cd03001 PDI_a_P5 151 251 6.50903E-58
24 g4631.t2 CDD cd02983 P5_C 261 389 8.44912E-64
16 g4631.t2 Gene3D G3DSA:3.40.30.10 Glutaredoxin 15 139 1.0E-31
17 g4631.t2 Gene3D G3DSA:3.40.30.10 Glutaredoxin 140 283 3.5E-40
4 g4631.t2 PANTHER PTHR45815 PROTEIN DISULFIDE-ISOMERASE A6 10 136 2.3E-134
7 g4631.t2 PANTHER PTHR45815:SF3 PROTEIN DISULFIDE-ISOMERASE A6 10 136 2.3E-134
5 g4631.t2 PANTHER PTHR45815 PROTEIN DISULFIDE-ISOMERASE A6 148 252 2.3E-134
8 g4631.t2 PANTHER PTHR45815:SF3 PROTEIN DISULFIDE-ISOMERASE A6 148 252 2.3E-134
3 g4631.t2 PANTHER PTHR45815 PROTEIN DISULFIDE-ISOMERASE A6 232 426 2.3E-134
6 g4631.t2 PANTHER PTHR45815:SF3 PROTEIN DISULFIDE-ISOMERASE A6 232 426 2.3E-134
10 g4631.t2 PRINTS PR00421 Thioredoxin family signature 171 179 1.9E-5
9 g4631.t2 PRINTS PR00421 Thioredoxin family signature 179 188 1.9E-5
11 g4631.t2 PRINTS PR00421 Thioredoxin family signature 219 230 1.9E-5
1 g4631.t2 Pfam PF00085 Thioredoxin 27 121 1.1E-20
2 g4631.t2 Pfam PF00085 Thioredoxin 152 249 2.5E-30
19 g4631.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
20 g4631.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 5 -
21 g4631.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 6 14 -
22 g4631.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
18 g4631.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 426 -
27 g4631.t2 ProSiteProfiles PS51352 Thioredoxin domain profile. 120 256 14.587
13 g4631.t2 SUPERFAMILY SSF52833 Thioredoxin-like 19 121 7.82E-29
14 g4631.t2 SUPERFAMILY SSF52833 Thioredoxin-like 148 252 5.1E-37
12 g4631.t2 SUPERFAMILY SSF52833 Thioredoxin-like 263 376 1.2E-8
15 g4631.t2 SignalP_EUK SignalP-noTM SignalP-noTM 1 19 -
25 g4631.t2 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 21 -
26 g4631.t2 TIGRFAM TIGR01126 pdi_dom: protein disulfide-isomerase domain 155 248 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

Pathway

  • This transcript belongs to the following pathways

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