General information for g8562.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Signal peptidase complex subunit 2.
Parent gene
- The parent gene g8562 is located on chr_2: 31351930..31352697 (- 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_2 | g8562 | g8562.t4 | isoform | g8562.t4 | 31351289 | 31352697 |
| chr_2 | g8562 | g8562.t4 | exon | g8562.t4.exon1 | 31351289 | 31352697 |
| chr_2 | g8562 | g8562.t4 | TTS | g8562.t4 | 31351758 | 31351758 |
| chr_2 | g8562 | g8562.t4 | cds | g8562.t4.CDS1 | 31351930 | 31352232 |
| chr_2 | g8562 | g8562.t4 | TSS | g8562.t4 | 31352783 | 31352783 |
Sequences
>g8562.t4 Gene=g8562 Length=1409
ATGACACAAAAGAAAGCTGAAAAACAAGATGATAGTCAAGAGGTAAGTTGAATTTTATTT
ATGTGGCATTTAAAGCACTCGTAAATTGTTGAAAACTTGAAAATTTTATTATGGCCACAT
CATCATTCAAAAACAATTTAATTTCTAATATCATAAAATAACAGGTTGTTCAAATCAACA
AATGGGATGGAAGTCAAGTGAAGCATGCAATTGATGATGCATTCAAAACGGCTTTAATGG
AACGACCAAATTGTAAAGAACACTTTGCTATTATCGATGGACGACTCTTTATTTGCTTTC
TCGCTGTTGGAATTGCATTATTCGCATTAGGATATGATTATATTTACACATTCCCTACTT
CAAGGTATTATATTTCTCAAGAAATTCATTTTAAATGATACTAATGCATTTTTATAAATT
TTTAGGCCTGTTCTTATCATTTGTGTTACTTCATATTTCTTCCTTATGGGTGTTTTGACA
ATCTACACTACATACATTGAAAAGGGAATATTTGCTGTAGCAATTCAAAGTGATGGCAGT
GGAAAAACAATCAAAAAATGGACTGCAAGCTCAGAAATGAAGAAATATGATGACAAGTAC
ACGTTAACATTAAGTGTAAAAGACTCAAAAAATGTTCGTGAGTTATCATCAACTAAATCA
TGTGCAAATTTTATTGATGTCGATGGTGTGGTTTGTAATGATTTAATCTCAGCTGAGCTC
AAAAGACTTTATAATTCATTAAATAATGCCGAAAAAAAAGATAAATAGTTCGAACAAGTC
TAAATAAAAACTTTCTCATCTCCCTAAATTTCAATGATTTTCGATTTCATTTTTATGATT
TGAGTAAAATTTCATGTCTAATTTTTATTAAATATTTTATTAAATGTGAATATATACACA
AAAGATTCTTAAAAATAAAATAAAGCAAAAAATAAATTACAAGTTACACCGTCTTAGCCA
AACAGGTCTATTTAAAATTCTGACTTTGTTAAGTGAATCGCATGCTTTTTCAGCATCGTT
GGGAGAATTGAAGTTTATACATGCATTTCCAGTTGGTTGTCCAAAGTCATTGTATCTGCG
AATTATTTGATCAGGATGTAAATCATAATCACGAAAAGCATCAATGATGTCATCAATTGT
AGCACGATAACACAAGTTTGAAATCAGTACTACACAACCAGGTGAACCAAAATCGAGTGG
TGGTGCCCAATCACGATTCATTGGACGATTTTGATTACGAAATTGTCCATTATCATCACC
AAATGAACTCAATACAGCTTCAACTTGTTCACGTGGAATTGGCATTACTTGAATTTTATT
CTTACCCATCATTGTATTATTTTTATCTAAAGCTTTCTTCATGTCATGTTCAAATTTGAA
TTCTATAAAACAATCACCACATTGTTTGC
>g8562.t4 Gene=g8562 Length=100
MGVLTIYTTYIEKGIFAVAIQSDGSGKTIKKWTASSEMKKYDDKYTLTLSVKDSKNVREL
SSTKSCANFIDVDGVVCNDLISAELKRLYNSLNNAEKKDK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g8562.t4 | Coils | Coil | Coil | 78 | 98 | - |
| 2 | g8562.t4 | PANTHER | PTHR13085 | MICROSOMAL SIGNAL PEPTIDASE 25 KDA SUBUNIT | 1 | 98 | 1.1E-20 |
| 1 | g8562.t4 | Pfam | PF06703 | Microsomal signal peptidase 25 kDa subunit (SPC25) | 1 | 89 | 7.5E-17 |
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:0016021 | integral component of membrane | CC |
| GO:0006465 | signal peptide processing | BP |
| GO:0005787 | signal peptidase complex | CC |
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.
