Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t7 TTS g10440.t7 9852108 9852108
chr_1 g10440 g10440.t7 isoform g10440.t7 9852202 9853437
chr_1 g10440 g10440.t7 exon g10440.t7.exon1 9852202 9852371
chr_1 g10440 g10440.t7 cds g10440.t7.CDS1 9852202 9852371
chr_1 g10440 g10440.t7 exon g10440.t7.exon2 9852700 9852861
chr_1 g10440 g10440.t7 cds g10440.t7.CDS2 9852700 9852861
chr_1 g10440 g10440.t7 exon g10440.t7.exon3 9852929 9853173
chr_1 g10440 g10440.t7 cds g10440.t7.CDS3 9852929 9853173
chr_1 g10440 g10440.t7 exon g10440.t7.exon4 9853263 9853292
chr_1 g10440 g10440.t7 cds g10440.t7.CDS4 9853263 9853292
chr_1 g10440 g10440.t7 exon g10440.t7.exon5 9853364 9853437
chr_1 g10440 g10440.t7 cds g10440.t7.CDS5 9853364 9853437
chr_1 g10440 g10440.t7 TSS g10440.t7 9853567 9853567

Sequences

>g10440.t7 Gene=g10440 Length=681
ATGGATTTGTTTCAAATTTCTATTTATGCTTCATTAGGAAGTTGCTTTTCTTTGTCATGT
TTATATGTTGCAAGTCTTTATGTATGGAATGTTGAAGAAAATCGAGACCATCCTTCAACG
ATTAAAAAACGTTTTTTTAGCGTATTCATTGTGATGCTCATTTCACCACTTTTCATCTAC
CTCTTCTCATCATCTGATCTTTTAAAAACGTACACAATATGGTACGTGATGGGATTAAGG
ATTGAAGGATTTTTCTCCGCTCTCATTTATCCTCTTTTACTTACTATTGTTTTATTTCTT
GGACCATTGAGTGTACAGTTGACGAATAGTATATGGAAAGTTTATTCAGAACCAATGTTC
TGGTTTATTAATTGTCAGAATTTATTGTGGATTCGAAACCACATTGTAGCACCGTTATCA
GAAGAATTTACATTTCGAGCATGTATGCTCCCTTTACTTCTACAATGTTTCACACCAATG
ACATCAATTTTCATAACTCCAATGTTTTTCGATCTCATTGCACAACCCGAGCCGAAACGA
TTTGTGTTTTTAATTCTCTATGTTTTAGGCCTAGTCGGCTTTATTCTTCTTTTGCCAACT
ATGACCGAACCTACATGGTATCAAAATAATCAATTTTGGTACAATAATTATACCAAGTCA
GCATTTAACTCGAGCATTTAA

>g10440.t7 Gene=g10440 Length=226
MDLFQISIYASLGSCFSLSCLYVASLYVWNVEENRDHPSTIKKRFFSVFIVMLISPLFIY
LFSSSDLLKTYTIWYVMGLRIEGFFSALIYPLLLTIVLFLGPLSVQLTNSIWKVYSEPMF
WFINCQNLLWIRNHIVAPLSEEFTFRACMLPLLLQCFTPMTSIFITPMFFDLIAQPEPKR
FVFLILYVLGLVGFILLLPTMTEPTWYQNNQFWYNNYTKSAFNSSI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g10440.t7 PANTHER PTHR13046 PROTEASE U48 CAAX PRENYL PROTEASE RCE1 5 171 1.8E-47
10 g10440.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
19 g10440.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 29 -
8 g10440.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 30 44 -
16 g10440.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 45 63 -
13 g10440.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 64 82 -
15 g10440.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 83 102 -
9 g10440.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 103 113 -
18 g10440.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 114 132 -
11 g10440.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 133 151 -
14 g10440.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 152 174 -
7 g10440.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 175 180 -
17 g10440.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 181 201 -
12 g10440.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 202 226 -
2 g10440.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 29 -
6 g10440.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 44 63 -
5 g10440.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 83 105 -
3 g10440.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 151 173 -
4 g10440.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 180 202 -

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:0004222 metalloendopeptidase activity MF
GO:0030176 integral component of endoplasmic reticulum membrane CC
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. There were no conditions that were differentially expressed