Gene loci information

Transcript annotation

  • This transcript has been annotated as Peptidyl-prolyl cis-trans isomerase D.

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 g9331 g9331.t1 TSS g9331.t1 1887289 1887289
chr_1 g9331 g9331.t1 isoform g9331.t1 1887364 1888878
chr_1 g9331 g9331.t1 exon g9331.t1.exon1 1887364 1887433
chr_1 g9331 g9331.t1 cds g9331.t1.CDS1 1887364 1887433
chr_1 g9331 g9331.t1 exon g9331.t1.exon2 1887497 1887723
chr_1 g9331 g9331.t1 cds g9331.t1.CDS2 1887497 1887723
chr_1 g9331 g9331.t1 exon g9331.t1.exon3 1888090 1888878
chr_1 g9331 g9331.t1 cds g9331.t1.CDS3 1888090 1888878
chr_1 g9331 g9331.t1 TTS g9331.t1 1889461 1889461

Sequences

>g9331.t1 Gene=g9331 Length=1086
ATGTTACCAAATCTTGCCGATCCAAATAATCCAGTTGTATTTTTAGATATAAAAATTGAC
CGTGAAGAAGTCGGTCGAATAATAATTGAACTGCGTAAAGACATATGTCCTAAAACTTGT
GAAAACTTTCGAGCTTTATGCACTGGTGAAAAAGGCTTAAGTTATAGAGGCTCTAAATTC
CATAAAATCATCAAATTATGTCTTGCACAAGGTGGTGACATCTCAAAGAAAGGTGATGGA
ACATCCGGAATGTCAATCTATGGGAAGTATTTTGAAGATGAGAACTTTGAGTTGAAGCAT
GACCCAGGATCAGTTTCAATGGCAAATTTTGGTAAACCAAACACCAACAATTCACAATTT
TTTATAACAACAGTCGAATGTTATCATCTTGATGGTTCAAATGTTGTTTTTGGTAGTGTT
AAAAAAGGACTTTCAATAGTCAATGAAATGGAAACTTACACAACGGATGAAGGAAAACCA
AAGCGTGAAATCACAATTGCTGATTGCGGTGAAATAAAACCTGGTGAAAATTGGGGATAT
TGTGATAATGATGCGACAGCTGACACACTACCACCATTTCCTGCTGATTGGGATGCATTT
GAGACTGATTTTGGTATCAATGAAAAAATTGATATTCTCAATAAAATGAAAGAAGCGGGA
AATTTTTTTTATCGTAATGAAGATTATGTGCATAGTGCAAGAAAATATAGAAAAGTTACA
CGATATTTCAATTATTTCAAAGATCGCACTAAAGATGAAAATGATGCTAAAATCCTTGAC
ACATTTCAATTGACGAATCTCACAAATCTTGCTGCAACGGAATTGAAACTTCATGATTAT
GAAGACGTGAGATTTTCATGCAATGCTGCTATAAATATCGATGCAAATAACATAAAAGCA
TTTTATCGTCGTGGCATTGCAAATCTTGAACTAAAAAATTATGAAATGGCATTGGATGAT
CTCAGAATTGCTCTTAAATTGTCGCCTAATAATAAGGCTATAATTAGTGAATTTGAGAGA
GCTAAAAAGCATTTAATGAGTTACAGAGCTTTAGAAAAAAATCATTATAAAAAAATGTTT
GCTTAA

>g9331.t1 Gene=g9331 Length=361
MLPNLADPNNPVVFLDIKIDREEVGRIIIELRKDICPKTCENFRALCTGEKGLSYRGSKF
HKIIKLCLAQGGDISKKGDGTSGMSIYGKYFEDENFELKHDPGSVSMANFGKPNTNNSQF
FITTVECYHLDGSNVVFGSVKKGLSIVNEMETYTTDEGKPKREITIADCGEIKPGENWGY
CDNDATADTLPPFPADWDAFETDFGINEKIDILNKMKEAGNFFYRNEDYVHSARKYRKVT
RYFNYFKDRTKDENDAKILDTFQLTNLTNLAATELKLHDYEDVRFSCNAAINIDANNIKA
FYRRGIANLELKNYEMALDDLRIALKLSPNNKAIISEFERAKKHLMSYRALEKNHYKKMF
A

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g9331.t1 Gene3D G3DSA:2.40.100.10 - 4 172 0.0000000
15 g9331.t1 Gene3D G3DSA:1.25.40.10 - 206 361 0.0000000
3 g9331.t1 PANTHER PTHR11071:SF497 GH06403P 6 361 0.0000000
4 g9331.t1 PANTHER PTHR11071 PEPTIDYL-PROLYL CIS-TRANS ISOMERASE 6 361 0.0000000
5 g9331.t1 PRINTS PR00153 Cyclophilin peptidyl-prolyl cis-trans isomerase signature 31 46 0.0000000
9 g9331.t1 PRINTS PR00153 Cyclophilin peptidyl-prolyl cis-trans isomerase signature 60 72 0.0000000
7 g9331.t1 PRINTS PR00153 Cyclophilin peptidyl-prolyl cis-trans isomerase signature 104 119 0.0000000
8 g9331.t1 PRINTS PR00153 Cyclophilin peptidyl-prolyl cis-trans isomerase signature 119 131 0.0000000
6 g9331.t1 PRINTS PR00153 Cyclophilin peptidyl-prolyl cis-trans isomerase signature 132 147 0.0000000
2 g9331.t1 Pfam PF00160 Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD 16 170 0.0000000
1 g9331.t1 Pfam PF00515 Tetratricopeptide repeat 299 331 0.0000004
17 g9331.t1 ProSiteProfiles PS50072 Cyclophilin-type peptidyl-prolyl cis-trans isomerase domain profile. 14 171 37.2300000
18 g9331.t1 ProSiteProfiles PS50293 TPR repeat region circular profile. 264 331 14.6500000
16 g9331.t1 ProSiteProfiles PS50005 TPR repeat profile. 298 331 10.9740000
12 g9331.t1 SMART SM00028 tpr_5 264 297 81.0000000
13 g9331.t1 SMART SM00028 tpr_5 298 331 0.0000027
11 g9331.t1 SUPERFAMILY SSF50891 Cyclophilin-like 7 173 0.0000000
10 g9331.t1 SUPERFAMILY SSF48452 TPR-like 207 359 0.0000000

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:0003755 peptidyl-prolyl cis-trans isomerase activity MF
GO:0005515 protein binding MF
GO:0000413 protein peptidyl-prolyl isomerization BP

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