General information for g10440.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as CAAX prenyl protease 2.
Parent gene
- The parent gene g10440 is located on chr_1: 9852202..9853437 (- 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 | g10440 | g10440.t1 | TTS | g10440.t1 | 9852108 | 9852108 |
| chr_1 | g10440 | g10440.t1 | isoform | g10440.t1 | 9852202 | 9853437 |
| chr_1 | g10440 | g10440.t1 | exon | g10440.t1.exon1 | 9852202 | 9852380 |
| chr_1 | g10440 | g10440.t1 | cds | g10440.t1.CDS1 | 9852202 | 9852380 |
| chr_1 | g10440 | g10440.t1 | exon | g10440.t1.exon2 | 9852439 | 9852627 |
| chr_1 | g10440 | g10440.t1 | cds | g10440.t1.CDS2 | 9852439 | 9852627 |
| chr_1 | g10440 | g10440.t1 | exon | g10440.t1.exon3 | 9852694 | 9852861 |
| chr_1 | g10440 | g10440.t1 | cds | g10440.t1.CDS3 | 9852694 | 9852861 |
| chr_1 | g10440 | g10440.t1 | exon | g10440.t1.exon4 | 9852929 | 9853173 |
| chr_1 | g10440 | g10440.t1 | cds | g10440.t1.CDS4 | 9852929 | 9853173 |
| chr_1 | g10440 | g10440.t1 | exon | g10440.t1.exon5 | 9853263 | 9853292 |
| chr_1 | g10440 | g10440.t1 | cds | g10440.t1.CDS5 | 9853263 | 9853292 |
| chr_1 | g10440 | g10440.t1 | exon | g10440.t1.exon6 | 9853364 | 9853437 |
| chr_1 | g10440 | g10440.t1 | cds | g10440.t1.CDS6 | 9853364 | 9853437 |
| chr_1 | g10440 | g10440.t1 | TSS | g10440.t1 | 9853567 | 9853567 |
Sequences
>g10440.t1 Gene=g10440 Length=885
ATGGATTTGTTTCAAATTTCTATTTATGCTTCATTAGGAAGTTGCTTTTCTTTGTCATGT
TTATATGTTGCAAGTCTTTATGTATGGAATGTTGAAGAAAATCGAGACCATCCTTCAACG
ATTAAAAAACGTTTTTTTAGCGTATTCATTGTGATGCTCATTTCACCACTTTTCATCTAC
CTCTTCTCATCATCTGATCTTTTAAAAACGTACACAATATGGTACGTGATGGGATTAAGG
ATTGAAGGATTTTTCTCCGCTCTCATTTATCCTCTTTTACTTACTATTGTTTTATTTCTT
GGACCATTGAGTGTACAGTTGACGAATAGTATATGGAAAGTTTATTCAGAACCAATGTTC
TGGTTTATTAATTGTCAGAATTTATTGTGGATTCGAAACCACATTGTAGCACCGTTATCA
GAAGAATTTACATTTCGAGCATGTATGCTCCCTTTACTTCTACAATGTTTCACACCAATG
ACATCAATTTTCATAACTCCAATGTTTTTCGGTGTTGCTCATTTACATCATATGATTGAA
AGATTAAGAAGTGGAATGGATAAGCGGACTGCCATTATTATCTCATTTTTTCAATTTTTC
TATACATCTGTCTTTGGAATCTATTCTGCATATCTTTTTGTGAGAACAGGTCATTTTGTT
GCGCCTTTTATAGCTCATGCTTTTTGTAACCACATGGGATTTCCTGATATACCAGATCTC
ATTGCACAACCCGAGCCGAAACGATTTGTGTTTTTAATTCTCTATGTTTTAGGCCTAGTC
GGCTTTATTCTTCTTTTGCCAACTATGACCGAACCTACATGGTATCAAAATAATCAATTT
TGGTACAATAATTATACCAAGTCAGCATTTAACTCGAGCATTTAA
>g10440.t1 Gene=g10440 Length=294
MDLFQISIYASLGSCFSLSCLYVASLYVWNVEENRDHPSTIKKRFFSVFIVMLISPLFIY
LFSSSDLLKTYTIWYVMGLRIEGFFSALIYPLLLTIVLFLGPLSVQLTNSIWKVYSEPMF
WFINCQNLLWIRNHIVAPLSEEFTFRACMLPLLLQCFTPMTSIFITPMFFGVAHLHHMIE
RLRSGMDKRTAIIISFFQFFYTSVFGIYSAYLFVRTGHFVAPFIAHAFCNHMGFPDIPDL
IAQPEPKRFVFLILYVLGLVGFILLLPTMTEPTWYQNNQFWYNNYTKSAFNSSI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g10440.t1 | PANTHER | PTHR13046 | PROTEASE U48 CAAX PRENYL PROTEASE RCE1 | 5 | 278 | 4.5E-87 |
| 1 | g10440.t1 | Pfam | PF02517 | CPBP intramembrane metalloprotease | 128 | 231 | 1.1E-17 |
| 16 | g10440.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 5 | - |
| 25 | g10440.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 6 | 29 | - |
| 12 | g10440.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 30 | 44 | - |
| 20 | g10440.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 45 | 63 | - |
| 17 | g10440.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 64 | 82 | - |
| 22 | g10440.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 83 | 107 | - |
| 9 | g10440.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 108 | 118 | - |
| 23 | g10440.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 119 | 137 | - |
| 15 | g10440.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 138 | 148 | - |
| 19 | g10440.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 149 | 170 | - |
| 10 | g10440.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 171 | 190 | - |
| 18 | g10440.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 191 | 213 | - |
| 13 | g10440.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 214 | 218 | - |
| 24 | g10440.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 219 | 237 | - |
| 11 | g10440.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 238 | 248 | - |
| 21 | g10440.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 249 | 269 | - |
| 14 | g10440.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 270 | 294 | - |
| 3 | g10440.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 29 | - |
| 8 | g10440.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 44 | 63 | - |
| 7 | g10440.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 83 | 105 | - |
| 4 | g10440.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 150 | 172 | - |
| 6 | g10440.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 192 | 214 | - |
| 5 | g10440.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 249 | 266 | - |
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
- This transcript has been annotated with K08658 (prenyl protein peptidase [EC:3.4.22.-])
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.
