Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t9 TTS g11713.t9 18019073 18019073
chr_1 g11713 g11713.t9 isoform g11713.t9 18019252 18020817
chr_1 g11713 g11713.t9 exon g11713.t9.exon1 18019252 18019276
chr_1 g11713 g11713.t9 cds g11713.t9.CDS1 18019253 18019276
chr_1 g11713 g11713.t9 exon g11713.t9.exon2 18019341 18019559
chr_1 g11713 g11713.t9 cds g11713.t9.CDS2 18019341 18019559
chr_1 g11713 g11713.t9 exon g11713.t9.exon3 18019627 18020342
chr_1 g11713 g11713.t9 cds g11713.t9.CDS3 18019627 18020100
chr_1 g11713 g11713.t9 exon g11713.t9.exon4 18020597 18020676
chr_1 g11713 g11713.t9 exon g11713.t9.exon5 18020740 18020817
chr_1 g11713 g11713.t9 TSS g11713.t9 18020895 18020895

Sequences

>g11713.t9 Gene=g11713 Length=1118
ATGAGTTTAGTACTTTATTCAATCATTGGTTTTCTAATATGTGAAAATTTGTTTGAACTT
TACCTTACGTTTAGACAGTTACGTGTTTATAAAAATAGTAAGGAAGTTCCTAATGAATTA
AAAGACGCTCTCAAAAAGGAGACTTTTGAAAAAGCAAGTTTTAGTCAATATTATTGGAAT
TTTTAAAGATTTGCCATTTAGCATCTATTCGACATTTGTATTAGAAGAAAAACATGGATT
TAACAAACAAACAGCATCATTCTTTATCAAAGATCAAATTAAGGCATTTGCAGTTGGTCA
AGCAATTTCTTGTCCTATAGTTGCTGCAATCGTTTGGATTGTGCAAATTGGTGGCGAATA
CTTTTTCATTTGGTTATGGGCTTTTGTAGGGGTGATTTCTATGCTCTTAATCACATTATA
TCCGGTTTATATTGCACCACTGTTTGACAAATTCAGACCTCTCGAACAAGGAAAATTGCG
ATCATCAATTGAAGAACTTGCAGCTTCATTGAACTTTCCATTGGGCCAATTGTTCATTGT
AGAAGGTTCAAAAAGATCTCATCATTCAAATGCATACTTCACAGGATTATGGGGAGTGAA
GAGAATCGTACTTTTCGATACACTTTTGCTTAATAAAGGACTAGAAGATGATAGCACACT
AGCTGAAGATGAAAAAGGCAAAGGATGCACCGATGAAGAAATTTTAGCTGTACTAGCTCA
TGAATTAGGACATTGGAAACTCGGGCACATGACAAAAAACATTATTATAATGCAGATTCA
ACTCTTTCTTGTTTTCATCATGTTTTCATACCTTTTCAAATTCGGTGCATTATATGAAGC
TGTAGGATTTACTAATGCAAAGCAACCAATTATTGTCGGATTCTTGGTAGTCATTATGTA
TGTACTTGCACCATTTAATACAATTGTCAGTTTTGGAATGACACTATTGTCTAGAAAGTT
TGAATATGAAGCAGATGCATTTGCTAATAATCTTGGATTTGGATCTGATTTGTGTAAGTC
ATTAATTAAATTGCATATAGATAATTTGGGCTTTCCTTACTACGATTATTTGTATAGCAG
TTGGAATCATTCCCATCCAACTCTTCTACAACGAATGA

>g11713.t9 Gene=g11713 Length=239
MLLITLYPVYIAPLFDKFRPLEQGKLRSSIEELAASLNFPLGQLFIVEGSKRSHHSNAYF
TGLWGVKRIVLFDTLLLNKGLEDDSTLAEDEKGKGCTDEEILAVLAHELGHWKLGHMTKN
IIIMQIQLFLVFIMFSYLFKFGALYEAVGFTNAKQPIIVGFLVVIMYVLAPFNTIVSFGM
TLLSRKFEYEADAFANNLGFGSDLCKSLIKLHIDNLGFPYYDYLYSSWNHSHPTLLQRM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g11713.t9 CDD cd07343 M48A_Zmpste24p_like 1 238 5.22155E-103
6 g11713.t9 Gene3D G3DSA:3.30.2010.10 Metalloproteases (zincins) 16 115 2.5E-37
2 g11713.t9 PANTHER PTHR10120:SF24 CAAX PRENYL PROTEASE 1 HOMOLOG 1 239 4.7E-83
3 g11713.t9 PANTHER PTHR10120 CAAX PRENYL PROTEASE 1 1 239 4.7E-83
1 g11713.t9 Pfam PF01435 Peptidase family M48 20 239 3.7E-38
7 g11713.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 120 -
11 g11713.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 121 145 -
9 g11713.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 146 156 -
10 g11713.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 157 176 -
8 g11713.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 177 239 -
4 g11713.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 122 144 -
5 g11713.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 157 179 -

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