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.t11 TTS g11713.t11 18019073 18019073
chr_1 g11713 g11713.t11 isoform g11713.t11 18019252 18022003
chr_1 g11713 g11713.t11 exon g11713.t11.exon1 18019252 18019276
chr_1 g11713 g11713.t11 cds g11713.t11.CDS1 18019253 18019276
chr_1 g11713 g11713.t11 exon g11713.t11.exon2 18019341 18019559
chr_1 g11713 g11713.t11 cds g11713.t11.CDS2 18019341 18019559
chr_1 g11713 g11713.t11 exon g11713.t11.exon3 18019627 18020524
chr_1 g11713 g11713.t11 cds g11713.t11.CDS3 18019627 18020524
chr_1 g11713 g11713.t11 exon g11713.t11.exon4 18020597 18020676
chr_1 g11713 g11713.t11 cds g11713.t11.CDS4 18020597 18020676
chr_1 g11713 g11713.t11 exon g11713.t11.exon5 18020740 18020958
chr_1 g11713 g11713.t11 cds g11713.t11.CDS5 18020740 18020817
chr_1 g11713 g11713.t11 exon g11713.t11.exon6 18021807 18022003
chr_1 g11713 g11713.t11 TSS g11713.t11 NA NA

Sequences

>g11713.t11 Gene=g11713 Length=1638
TGAAAATCTTTTGTTACACTCACTCCCTTGCAAAAAATAATGATATAATTTTTTGTTCCT
ATTAAATTTTTCATTATTTTCATTTAATTTAAATTTAATAGTTCATTAAAAATAAATAAA
TATTCTCTATATGTAAATTTCTGAAAGCATTTCCTTTCAAACCATAAATCTGGTATATCA
TAGACTCCTTAAATAGGGGGTCAGCAATTATGATGCAAAAAGTTTTTAGAATCATTTTAT
TTTCTTGTCATCACTCCCTTGATTTCTTTTCGATTCGGCAAAAACATAAGAAGCGTGAAA
TAATATTTAAAAAGATAATAAAATAAAATAGTTTAATTATGAGTTTAGTACTTTATTCAA
TCATTGGTTTTCTAATATGTGAAAATTTGTTTGAACTTTACCTTACGTTTAGACAGTTAC
GTGTTTATAAAAATAGTAAGGAAGTTCCTAATGAATTAAAAGACGCTCTCAAAAAGGAGA
CTTTTGAAAAAGCAAGACTCTATGGACGAGATAAAGCGGAGTTTGAAATTTTTAAATCTA
TTCTTTGTGACATTATAATTGTCTCGATTGAATTATATTGTGGTTTCGTTGCCTATTTGT
GGAATGAAGCAGTAGTTTATACAGGAAGAATTCATCTAAATCCAGCAAATGAAATTCATG
TTTCTTGTGTTTTTCTAGTTTTAGTCAATATTATTGGAATTTTTAAAGATTTGCCATTTA
GCATCTATTCGACATTTGTATTAGAAGAAAAACATGGATTTAACAAACAAACAGCATCAT
TCTTTATCAAAGATCAAATTAAGGCATTTGCAGTTGGTCAAGCAATTTCTTGTCCTATAG
TTGCTGCAATCGTTTGGATTGTGCAAATTGGTGGCGAATACTTTTTCATTTGGTTATGGG
CTTTTGTAGGGGTGATTTCTATGCTCTTAATCACATTATATCCGGTTTATATTGCACCAC
TGTTTGACAAATTCAGACCTCTCGAACAAGGAAAATTGCGATCATCAATTGAAGAACTTG
CAGCTTCATTGAACTTTCCATTGGGCCAATTGTTCATTGTAGAAGGTTCAAAAAGATCTC
ATCATTCAAATGCATACTTCACAGGATTATGGGGAGTGAAGAGAATCGTACTTTTCGATA
CACTTTTGCTTAATAAAGGACTAGAAGATGATAGCACACTAGCTGAAGATGAAAAAGGCA
AAGGATGCACCGATGAAGAAATTTTAGCTGTACTAGCTCATGAATTAGGACATTGGAAAC
TCGGGCACATGACAAAAAACATTATTATAATGCAGATTCAACTCTTTCTTGTTTTCATCA
TGTTTTCATACCTTTTCAAATTCGGTGCATTATATGAAGCTGTAGGATTTACTAATGCAA
AGCAACCAATTATTGTCGGATTCTTGGTAGTCATTATGTATGTACTTGCACCATTTAATA
CAATTGTCAGTTTTGGAATGACACTATTGTCTAGAAAGTTTGAATATGAAGCAGATGCAT
TTGCTAATAATCTTGGATTTGGATCTGATTTGTGTAAGTCATTAATTAAATTGCATATAG
ATAATTTGGGCTTTCCTTACTACGATTATTTGTATAGCAGTTGGAATCATTCCCATCCAA
CTCTTCTACAACGAATGA

>g11713.t11 Gene=g11713 Length=433
MSLVLYSIIGFLICENLFELYLTFRQLRVYKNSKEVPNELKDALKKETFEKARLYGRDKA
EFEIFKSILCDIIIVSIELYCGFVAYLWNEAVVYTGRIHLNPANEIHVSCVFLVLVNIIG
IFKDLPFSIYSTFVLEEKHGFNKQTASFFIKDQIKAFAVGQAISCPIVAAIVWIVQIGGE
YFFIWLWAFVGVISMLLITLYPVYIAPLFDKFRPLEQGKLRSSIEELAASLNFPLGQLFI
VEGSKRSHHSNAYFTGLWGVKRIVLFDTLLLNKGLEDDSTLAEDEKGKGCTDEEILAVLA
HELGHWKLGHMTKNIIIMQIQLFLVFIMFSYLFKFGALYEAVGFTNAKQPIIVGFLVVIM
YVLAPFNTIVSFGMTLLSRKFEYEADAFANNLGFGSDLCKSLIKLHIDNLGFPYYDYLYS
SWNHSHPTLLQRM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
28 g11713.t11 CDD cd07343 M48A_Zmpste24p_like 6 432 6.64364E-170
12 g11713.t11 Gene3D G3DSA:3.30.2010.10 Metalloproteases (zincins) 210 309 8.4E-37
3 g11713.t11 PANTHER PTHR10120:SF24 CAAX PRENYL PROTEASE 1 HOMOLOG 4 433 7.3E-144
4 g11713.t11 PANTHER PTHR10120 CAAX PRENYL PROTEASE 1 4 433 7.3E-144
2 g11713.t11 Pfam PF16491 CAAX prenyl protease N-terminal, five membrane helices 26 211 7.4E-62
1 g11713.t11 Pfam PF01435 Peptidase family M48 214 433 2.4E-37
19 g11713.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
27 g11713.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 24 -
15 g11713.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 25 63 -
24 g11713.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 64 86 -
18 g11713.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 87 105 -
23 g11713.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 106 135 -
16 g11713.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 136 155 -
22 g11713.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 156 176 -
20 g11713.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 177 181 -
26 g11713.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 182 204 -
14 g11713.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 205 314 -
25 g11713.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 315 339 -
17 g11713.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 340 350 -
21 g11713.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 351 370 -
13 g11713.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 371 433 -
11 g11713.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 5 24 -
7 g11713.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 67 89 -
10 g11713.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 113 135 -
6 g11713.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 156 178 -
8 g11713.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 183 205 -
5 g11713.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 322 341 -
9 g11713.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 351 373 -

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

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