Gene loci information

Transcript annotation

  • This transcript has been annotated as CAAX prenyl protease 2.

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 g10440 g10440.t6 TTS g10440.t6 9852108 9852108
chr_1 g10440 g10440.t6 isoform g10440.t6 9852202 9853437
chr_1 g10440 g10440.t6 exon g10440.t6.exon1 9852202 9852380
chr_1 g10440 g10440.t6 cds g10440.t6.CDS1 9852202 9852380
chr_1 g10440 g10440.t6 exon g10440.t6.exon2 9852439 9852627
chr_1 g10440 g10440.t6 cds g10440.t6.CDS2 9852439 9852627
chr_1 g10440 g10440.t6 exon g10440.t6.exon3 9852694 9852861
chr_1 g10440 g10440.t6 cds g10440.t6.CDS3 9852694 9852861
chr_1 g10440 g10440.t6 exon g10440.t6.exon4 9852929 9853173
chr_1 g10440 g10440.t6 cds g10440.t6.CDS4 9852929 9853173
chr_1 g10440 g10440.t6 exon g10440.t6.exon5 9853346 9853437
chr_1 g10440 g10440.t6 cds g10440.t6.CDS5 9853346 9853437
chr_1 g10440 g10440.t6 TSS g10440.t6 9853567 9853567

Sequences

>g10440.t6 Gene=g10440 Length=873
ATGGATTTGTTTCAAATTTCTATTTATGCTTCATTAGGAAGTTGCTTTTCTTTGTCATGT
TTATATGTTGCAAGGTATTTATACATTTTATTAGACCATCCTTCAACGATTAAAAAACGT
TTTTTTAGCGTATTCATTGTGATGCTCATTTCACCACTTTTCATCTACCTCTTCTCATCA
TCTGATCTTTTAAAAACGTACACAATATGGTACGTGATGGGATTAAGGATTGAAGGATTT
TTCTCCGCTCTCATTTATCCTCTTTTACTTACTATTGTTTTATTTCTTGGACCATTGAGT
GTACAGTTGACGAATAGTATATGGAAAGTTTATTCAGAACCAATGTTCTGGTTTATTAAT
TGTCAGAATTTATTGTGGATTCGAAACCACATTGTAGCACCGTTATCAGAAGAATTTACA
TTTCGAGCATGTATGCTCCCTTTACTTCTACAATGTTTCACACCAATGACATCAATTTTC
ATAACTCCAATGTTTTTCGGTGTTGCTCATTTACATCATATGATTGAAAGATTAAGAAGT
GGAATGGATAAGCGGACTGCCATTATTATCTCATTTTTTCAATTTTTCTATACATCTGTC
TTTGGAATCTATTCTGCATATCTTTTTGTGAGAACAGGTCATTTTGTTGCGCCTTTTATA
GCTCATGCTTTTTGTAACCACATGGGATTTCCTGATATACCAGATCTCATTGCACAACCC
GAGCCGAAACGATTTGTGTTTTTAATTCTCTATGTTTTAGGCCTAGTCGGCTTTATTCTT
CTTTTGCCAACTATGACCGAACCTACATGGTATCAAAATAATCAATTTTGGTACAATAAT
TATACCAAGTCAGCATTTAACTCGAGCATTTAA

>g10440.t6 Gene=g10440 Length=290
MDLFQISIYASLGSCFSLSCLYVARYLYILLDHPSTIKKRFFSVFIVMLISPLFIYLFSS
SDLLKTYTIWYVMGLRIEGFFSALIYPLLLTIVLFLGPLSVQLTNSIWKVYSEPMFWFIN
CQNLLWIRNHIVAPLSEEFTFRACMLPLLLQCFTPMTSIFITPMFFGVAHLHHMIERLRS
GMDKRTAIIISFFQFFYTSVFGIYSAYLFVRTGHFVAPFIAHAFCNHMGFPDIPDLIAQP
EPKRFVFLILYVLGLVGFILLLPTMTEPTWYQNNQFWYNNYTKSAFNSSI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g10440.t6 PANTHER PTHR13046 PROTEASE U48 CAAX PRENYL PROTEASE RCE1 5 274 4.0E-80
1 g10440.t6 Pfam PF02517 CPBP intramembrane metalloprotease 124 227 1.1E-17
15 g10440.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
24 g10440.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 29 -
12 g10440.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 30 40 -
21 g10440.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 41 59 -
14 g10440.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 60 78 -
18 g10440.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 79 103 -
11 g10440.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 104 114 -
22 g10440.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 115 133 -
17 g10440.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 134 144 -
19 g10440.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 145 166 -
10 g10440.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 167 186 -
25 g10440.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 187 209 -
13 g10440.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 210 214 -
23 g10440.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 215 233 -
9 g10440.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 234 244 -
20 g10440.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 245 265 -
16 g10440.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 266 290 -
4 g10440.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 6 28 -
7 g10440.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 41 59 -
3 g10440.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 79 101 -
8 g10440.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 146 168 -
5 g10440.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 188 210 -
6 g10440.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 245 267 -

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:0016020 membrane CC
GO:0004222 metalloendopeptidase activity MF
GO:0030176 integral component of endoplasmic reticulum membrane CC
GO:0071586 CAAX-box protein processing 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. There were no conditions that were differentially expressed