Gene loci information

Transcript annotation

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

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_3 g3815 g3815.t1 TSS g3815.t1 28166581 28166581
chr_3 g3815 g3815.t1 isoform g3815.t1 28166647 28167543
chr_3 g3815 g3815.t1 exon g3815.t1.exon1 28166647 28167543
chr_3 g3815 g3815.t1 cds g3815.t1.CDS1 28166647 28167543
chr_3 g3815 g3815.t1 TTS g3815.t1 28167577 28167577

Sequences

>g3815.t1 Gene=g3815 Length=897
ATGGCGAATGAAAAGAATACAATTTATGTTGGTGGATTAGCGGATGAAGTAACCGAGAAA
TTATTAAACGATTTATTTATAGTTTTCGGCGATATTAGTGAAATACAAATGCCAACAGAT
TACGAGAAAGGAAACCATCGAGGTTTTGCATTTATTTGCTATGAATCAAATGAAGATGCT
GCAGCAGCAGTTGATAATATGAATGACTCAGAAATCGCCGGTAGAACTATAAGAGTTAAT
CTCGCAAAACCTCAACGAATGAAAGAAAATTCAATAAAACCTGTTTGGGCTGAAGATGCT
TGGCTTCAAAAATATGCAGGAGTTACATTAAATAATGAGAGCGAAGAGGTAAAGCCAGAA
AATCCCGAGAATGTAACTGTGACAGAGCAAGAAGAAAAGAAAGCTAATCCTCAAGTTTAT
TTTGATATCAAAATTGGTAATTCTGATGTAGGTCGAATCATCATGTTATTAAGGGCTGAT
GTGGTGCCAAAGACTGCTGAAAATTTCAGAGTCTTATGTACTGGCGAAATGGGTTTCGGT
TTTAAAGGATCAACTTTTCATCGAATCATTCCTGAGTTTATGTGTCAAGCTGGTGACTTT
ACAAAACATAATGGCACAGGAGGCAAAAGTATATATGGGAGTAAGTTTGCAGATGAAAAC
TTTAAGCTCAAGCATACAGGATTTGGCACTTTAAGCATGGCAAATTCAGGACCTAACACA
AATGGCTCACAATTCTTCATTTGCACAGCTAAAACAGATTGGCTAGACAACAAACATTGT
GTATTTGGAAAAGTTATTGCAGGAGCTGAGGTGGTAAAGAAAATAGAAAAATGTGGAACA
AAATCAGGCACACCAACACAAAAAGTGGTAATTTACTCATGTGGAGAACTAAAATAA

>g3815.t1 Gene=g3815 Length=298
MANEKNTIYVGGLADEVTEKLLNDLFIVFGDISEIQMPTDYEKGNHRGFAFICYESNEDA
AAAVDNMNDSEIAGRTIRVNLAKPQRMKENSIKPVWAEDAWLQKYAGVTLNNESEEVKPE
NPENVTVTEQEEKKANPQVYFDIKIGNSDVGRIIMLLRADVVPKTAENFRVLCTGEMGFG
FKGSTFHRIIPEFMCQAGDFTKHNGTGGKSIYGSKFADENFKLKHTGFGTLSMANSGPNT
NGSQFFICTAKTDWLDNKHCVFGKVIAGAEVVKKIEKCGTKSGTPTQKVVIYSCGELK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g3815.t1 CDD cd12347 RRM_PPIE 8 80 9.34123E-38
16 g3815.t1 CDD cd01926 cyclophilin_ABH_like 137 295 1.25303E-108
13 g3815.t1 Gene3D G3DSA:3.30.70.330 - 1 93 1.6E-26
12 g3815.t1 Gene3D G3DSA:2.40.100.10 - 127 298 5.5E-80
3 g3815.t1 PANTHER PTHR11071:SF503 PEPTIDYLPROLYL ISOMERASE E (CYCLOPHILIN E) 62 297 1.1E-100
4 g3815.t1 PANTHER PTHR11071 PEPTIDYL-PROLYL CIS-TRANS ISOMERASE 62 297 1.1E-100
14 g3815.t1 PIRSF PIRSF001475 Cyclophilin_E 1 298 5.0E-155
6 g3815.t1 PRINTS PR00153 Cyclophilin peptidyl-prolyl cis-trans isomerase signature 157 172 1.4E-35
5 g3815.t1 PRINTS PR00153 Cyclophilin peptidyl-prolyl cis-trans isomerase signature 186 198 1.4E-35
9 g3815.t1 PRINTS PR00153 Cyclophilin peptidyl-prolyl cis-trans isomerase signature 229 244 1.4E-35
8 g3815.t1 PRINTS PR00153 Cyclophilin peptidyl-prolyl cis-trans isomerase signature 244 256 1.4E-35
7 g3815.t1 PRINTS PR00153 Cyclophilin peptidyl-prolyl cis-trans isomerase signature 257 272 1.4E-35
1 g3815.t1 Pfam PF00076 RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 8 78 1.9E-20
2 g3815.t1 Pfam PF00160 Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD 142 295 3.7E-45
18 g3815.t1 ProSitePatterns PS00170 Cyclophilin-type peptidyl-prolyl cis-trans isomerase signature. 181 198 -
19 g3815.t1 ProSiteProfiles PS50102 Eukaryotic RNA Recognition Motif (RRM) profile. 6 84 19.894
20 g3815.t1 ProSiteProfiles PS50072 Cyclophilin-type peptidyl-prolyl cis-trans isomerase domain profile. 140 296 42.814
17 g3815.t1 SMART SM00360 rrm1_1 7 80 7.7E-25
10 g3815.t1 SUPERFAMILY SSF54928 RNA-binding domain, RBD 4 86 3.09E-27
11 g3815.t1 SUPERFAMILY SSF50891 Cyclophilin-like 134 297 7.16E-72

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:0003723 RNA binding MF
GO:0000413 protein peptidyl-prolyl isomerization BP
GO:0003676 nucleic acid binding 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