General information for g11713.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as CAAX prenyl protease 1-like protein.
Parent gene
- The parent gene g11713 is located on chr_1: 18019916..18022003 (- strand)
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.t3 | TTS | g11713.t3 | 18019073 | 18019073 |
| chr_1 | g11713 | g11713.t3 | isoform | g11713.t3 | 18019252 | 18020817 |
| chr_1 | g11713 | g11713.t3 | exon | g11713.t3.exon1 | 18019252 | 18019276 |
| chr_1 | g11713 | g11713.t3 | cds | g11713.t3.CDS1 | 18019253 | 18019276 |
| chr_1 | g11713 | g11713.t3 | exon | g11713.t3.exon2 | 18019341 | 18019559 |
| chr_1 | g11713 | g11713.t3 | cds | g11713.t3.CDS2 | 18019341 | 18019559 |
| chr_1 | g11713 | g11713.t3 | exon | g11713.t3.exon3 | 18019627 | 18020524 |
| chr_1 | g11713 | g11713.t3 | cds | g11713.t3.CDS3 | 18019627 | 18020524 |
| chr_1 | g11713 | g11713.t3 | exon | g11713.t3.exon4 | 18020597 | 18020676 |
| chr_1 | g11713 | g11713.t3 | cds | g11713.t3.CDS4 | 18020597 | 18020676 |
| chr_1 | g11713 | g11713.t3 | exon | g11713.t3.exon5 | 18020740 | 18020817 |
| chr_1 | g11713 | g11713.t3 | cds | g11713.t3.CDS5 | 18020740 | 18020817 |
| chr_1 | g11713 | g11713.t3 | TSS | g11713.t3 | 18020895 | 18020895 |
Sequences
>g11713.t3 Gene=g11713 Length=1300
ATGAGTTTAGTACTTTATTCAATCATTGGTTTTCTAATATGTGAAAATTTGTTTGAACTT
TACCTTACGTTTAGACAGTTACGTGTTTATAAAAATAGTAAGGAAGTTCCTAATGAATTA
AAAGACGCTCTCAAAAAGGAGACTTTTGAAAAAGCAAGACTCTATGGACGAGATAAAGCG
GAGTTTGAAATTTTTAAATCTATTCTTTGTGACATTATAATTGTCTCGATTGAATTATAT
TGTGGTTTCGTTGCCTATTTGTGGAATGAAGCAGTAGTTTATACAGGAAGAATTCATCTA
AATCCAGCAAATGAAATTCATGTTTCTTGTGTTTTTCTAGTTTTAGTCAATATTATTGGA
ATTTTTAAAGATTTGCCATTTAGCATCTATTCGACATTTGTATTAGAAGAAAAACATGGA
TTTAACAAACAAACAGCATCATTCTTTATCAAAGATCAAATTAAGGCATTTGCAGTTGGT
CAAGCAATTTCTTGTCCTATAGTTGCTGCAATCGTTTGGATTGTGCAAATTGGTGGCGAA
TACTTTTTCATTTGGTTATGGGCTTTTGTAGGGGTGATTTCTATGCTCTTAATCACATTA
TATCCGGTTTATATTGCACCACTGTTTGACAAATTCAGACCTCTCGAACAAGGAAAATTG
CGATCATCAATTGAAGAACTTGCAGCTTCATTGAACTTTCCATTGGGCCAATTGTTCATT
GTAGAAGGTTCAAAAAGATCTCATCATTCAAATGCATACTTCACAGGATTATGGGGAGTG
AAGAGAATCGTACTTTTCGATACACTTTTGCTTAATAAAGGACTAGAAGATGATAGCACA
CTAGCTGAAGATGAAAAAGGCAAAGGATGCACCGATGAAGAAATTTTAGCTGTACTAGCT
CATGAATTAGGACATTGGAAACTCGGGCACATGACAAAAAACATTATTATAATGCAGATT
CAACTCTTTCTTGTTTTCATCATGTTTTCATACCTTTTCAAATTCGGTGCATTATATGAA
GCTGTAGGATTTACTAATGCAAAGCAACCAATTATTGTCGGATTCTTGGTAGTCATTATG
TATGTACTTGCACCATTTAATACAATTGTCAGTTTTGGAATGACACTATTGTCTAGAAAG
TTTGAATATGAAGCAGATGCATTTGCTAATAATCTTGGATTTGGATCTGATTTGTGTAAG
TCATTAATTAAATTGCATATAGATAATTTGGGCTTTCCTTACTACGATTATTTGTATAGC
AGTTGGAATCATTCCCATCCAACTCTTCTACAACGAATGA
>g11713.t3 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.t3 | CDD | cd07343 | M48A_Zmpste24p_like | 6 | 432 | 6.64364E-170 |
| 12 | g11713.t3 | Gene3D | G3DSA:3.30.2010.10 | Metalloproteases (zincins) | 210 | 309 | 8.4E-37 |
| 3 | g11713.t3 | PANTHER | PTHR10120:SF24 | CAAX PRENYL PROTEASE 1 HOMOLOG | 4 | 433 | 7.3E-144 |
| 4 | g11713.t3 | PANTHER | PTHR10120 | CAAX PRENYL PROTEASE 1 | 4 | 433 | 7.3E-144 |
| 2 | g11713.t3 | Pfam | PF16491 | CAAX prenyl protease N-terminal, five membrane helices | 26 | 211 | 7.4E-62 |
| 1 | g11713.t3 | Pfam | PF01435 | Peptidase family M48 | 214 | 433 | 2.4E-37 |
| 19 | g11713.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 5 | - |
| 27 | g11713.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 6 | 24 | - |
| 15 | g11713.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 25 | 63 | - |
| 24 | g11713.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 64 | 86 | - |
| 18 | g11713.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 87 | 105 | - |
| 23 | g11713.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 106 | 135 | - |
| 16 | g11713.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 136 | 155 | - |
| 22 | g11713.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 156 | 176 | - |
| 20 | g11713.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 177 | 181 | - |
| 26 | g11713.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 182 | 204 | - |
| 14 | g11713.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 205 | 314 | - |
| 25 | g11713.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 315 | 339 | - |
| 17 | g11713.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 340 | 350 | - |
| 21 | g11713.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 351 | 370 | - |
| 13 | g11713.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 371 | 433 | - |
| 11 | g11713.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 5 | 24 | - |
| 7 | g11713.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 67 | 89 | - |
| 10 | g11713.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 113 | 135 | - |
| 6 | g11713.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 156 | 178 | - |
| 8 | g11713.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 183 | 205 | - |
| 5 | g11713.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 322 | 341 | - |
| 9 | g11713.t3 | 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
- This transcript has been annotated with K06013 (STE24 endopeptidase)
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.
