Gene loci information

Transcript annotation

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

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 g10620 g10620.t4 TSS g10620.t4 10782911 10782911
chr_1 g10620 g10620.t4 isoform g10620.t4 10782969 10784929
chr_1 g10620 g10620.t4 exon g10620.t4.exon1 10782969 10782991
chr_1 g10620 g10620.t4 exon g10620.t4.exon2 10783285 10783471
chr_1 g10620 g10620.t4 cds g10620.t4.CDS1 10783298 10783471
chr_1 g10620 g10620.t4 exon g10620.t4.exon3 10784379 10784619
chr_1 g10620 g10620.t4 cds g10620.t4.CDS2 10784379 10784619
chr_1 g10620 g10620.t4 exon g10620.t4.exon4 10784684 10784929
chr_1 g10620 g10620.t4 cds g10620.t4.CDS3 10784684 10784766
chr_1 g10620 g10620.t4 TTS g10620.t4 10785316 10785316

Sequences

>g10620.t4 Gene=g10620 Length=697
AAAAGAATTTCTTTAAAAATAAGGGCTCGTTCAGCAATGATTTTCAGAAATTTAACTTCA
GTTCAGTTTAAGAGTTTGACGAGAACGCACGCAGCATTTTCTACAGTCAGCTTACAATTA
ATTCGTAATTTTGCAAGCAAAATGGGATTTCCTCGAGTTTTTTTCGATATGGCCGCTGAT
GGTCAAGCACTTGGAAGAATTGTAATTGAACTTCGTACTGATGTCGTCCCAAAAACATGC
GAAAACTTCCGTGCGTTGTGCACCGGCGAAAAGGGATATGGATATAAAGGTTCAACATTC
CACCGTGTCATTCCCAATTTCATGTGTCAAGGCGGTGACTTTACAAATCACAATGGAACT
GGAGGAAAATCAATCTATGGCAACAAGTTTGAGGATGAGAACTTCACATTGAAGCACACT
GGCCCTGGCATTATGTCAATGGCTAATGCAGGACCAAACACTAATGGTTCTCAGTTCTTC
ATTACGACTGTGAAAACTAGCTGGTTAGACAACAGGTATGTTTTTAAATTCTAATAAAAT
ATTAGTATAATAAATTAAATTTATTTTATTTTATAGACACGTAGTTTTCGGATCAGTTGT
CGAAGGCATGGATATTGTCAAGAAGATTGAGTCATATGGATCTCAATCAGGCAAGCCATC
AAAGAACATCACTATTGCCAACTCTGGTCAACTCTAA

>g10620.t4 Gene=g10620 Length=165
MIFRNLTSVQFKSLTRTHAAFSTVSLQLIRNFASKMGFPRVFFDMAADGQALGRIVIELR
TDVVPKTCENFRALCTGEKGYGYKGSTFHRVIPNFMCQGGDFTNHNGTGGKSIYGNKFED
ENFTLKHTGPGIMSMANAGPNTNGSQFFITTVKTSWLDNRYVFKF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g10620.t4 Gene3D G3DSA:2.40.100.10 - 12 163 3.3E-67
2 g10620.t4 PANTHER PTHR11071 PEPTIDYL-PROLYL CIS-TRANS ISOMERASE 27 162 3.9E-74
3 g10620.t4 PANTHER PTHR11071:SF408 PEPTIDYL-PROLYL CIS-TRANS ISOMERASE F, MITOCHONDRIAL 27 162 3.9E-74
7 g10620.t4 PRINTS PR00153 Cyclophilin peptidyl-prolyl cis-trans isomerase signature 59 74 5.7E-31
6 g10620.t4 PRINTS PR00153 Cyclophilin peptidyl-prolyl cis-trans isomerase signature 88 100 5.7E-31
5 g10620.t4 PRINTS PR00153 Cyclophilin peptidyl-prolyl cis-trans isomerase signature 131 146 5.7E-31
4 g10620.t4 PRINTS PR00153 Cyclophilin peptidyl-prolyl cis-trans isomerase signature 146 158 5.7E-31
1 g10620.t4 Pfam PF00160 Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD 44 162 1.5E-37
11 g10620.t4 ProSitePatterns PS00170 Cyclophilin-type peptidyl-prolyl cis-trans isomerase signature. 83 100 -
12 g10620.t4 ProSiteProfiles PS50072 Cyclophilin-type peptidyl-prolyl cis-trans isomerase domain profile. 42 165 37.503
8 g10620.t4 SUPERFAMILY SSF50891 Cyclophilin-like 29 162 2.34E-61
9 g10620.t4 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 19 -

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:0006457 protein folding BP
GO:0003755 peptidyl-prolyl cis-trans isomerase activity MF
GO:0000413 protein peptidyl-prolyl isomerization BP

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