Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative CAAX prenyl protease 1-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_1 g11713 g11713.t12 TTS g11713.t12 18019073 18019073
chr_1 g11713 g11713.t12 isoform g11713.t12 18019916 18020817
chr_1 g11713 g11713.t12 exon g11713.t12.exon1 18019916 18020676
chr_1 g11713 g11713.t12 cds g11713.t12.CDS1 18019918 18020553
chr_1 g11713 g11713.t12 exon g11713.t12.exon2 18020740 18020817
chr_1 g11713 g11713.t12 TSS g11713.t12 18020895 18020895

Sequences

>g11713.t12 Gene=g11713 Length=839
ATGAGTTTAGTACTTTATTCAATCATTGGTTTTCTAATATGTGAAAATTTGTTTGAACTT
TACCTTACGTTTAGACAGTTACGTGTTTATAAAAATAGTAAGGAAGTTCCTAATGAATTA
AAAGACGCTCTCAAAAAGGAGACTTTTGAAAAAGCAAGGTAAGCCTAAATACTTGTTATC
TTAATCAAACATATGCTGATAATGTTTTTCACTGAAAAACTTATTTTCAGACTCTATGGA
CGAGATAAAGCGGAGTTTGAAATTTTTAAATCTATTCTTTGTGACATTATAATTGTCTCG
ATTGAATTATATTGTGGTTTCGTTGCCTATTTGTGGAATGAAGCAGTAGTTTATACAGGA
AGAATTCATCTAAATCCAGCAAATGAAATTCATGTTTCTTGTGTTTTTCTAGTTTTAGTC
AATATTATTGGAATTTTTAAAGATTTGCCATTTAGCATCTATTCGACATTTGTATTAGAA
GAAAAACATGGATTTAACAAACAAACAGCATCATTCTTTATCAAAGATCAAATTAAGGCA
TTTGCAGTTGGTCAAGCAATTTCTTGTCCTATAGTTGCTGCAATCGTTTGGATTGTGCAA
ATTGGTGGCGAATACTTTTTCATTTGGTTATGGGCTTTTGTAGGGGTGATTTCTATGCTC
TTAATCACATTATATCCGGTTTATATTGCACCACTGTTTGACAAATTCAGACCTCTCGAA
CAAGGAAAATTGCGATCATCAATTGAAGAACTTGCAGCTTCATTGAACTTTCCATTGGGC
CAATTGTTCATTGTAGAAGGTTCAAAAAGATCTCATCATTCAAATGCATACTTCACAGG

>g11713.t12 Gene=g11713 Length=212
MFFTEKLIFRLYGRDKAEFEIFKSILCDIIIVSIELYCGFVAYLWNEAVVYTGRIHLNPA
NEIHVSCVFLVLVNIIGIFKDLPFSIYSTFVLEEKHGFNKQTASFFIKDQIKAFAVGQAI
SCPIVAAIVWIVQIGGEYFFIWLWAFVGVISMLLITLYPVYIAPLFDKFRPLEQGKLRSS
IEELAASLNFPLGQLFIVEGSKRSHHSNAYFT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g11713.t12 Gene3D G3DSA:3.30.2010.10 Metalloproteases (zincins) 167 212 2.5E-15
3 g11713.t12 PANTHER PTHR10120:SF24 CAAX PRENYL PROTEASE 1 HOMOLOG 10 212 2.4E-65
4 g11713.t12 PANTHER PTHR10120 CAAX PRENYL PROTEASE 1 10 212 2.4E-65
2 g11713.t12 Pfam PF16491 CAAX prenyl protease N-terminal, five membrane helices 10 168 1.9E-51
1 g11713.t12 Pfam PF01435 Peptidase family M48 171 212 1.1E-4
10 g11713.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 20 -
17 g11713.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 21 43 -
14 g11713.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 44 62 -
15 g11713.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 63 92 -
12 g11713.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 93 112 -
16 g11713.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 113 133 -
13 g11713.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 134 138 -
18 g11713.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 139 161 -
11 g11713.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 162 212 -
8 g11713.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 21 43 -
6 g11713.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 70 92 -
5 g11713.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 113 135 -
7 g11713.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 140 162 -

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:0008233 peptidase activity MF
GO:0006508 proteolysis BP
GO:0004222 metalloendopeptidase activity MF
GO:0071586 CAAX-box protein processing 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