General information for g10523.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Signal recognition particle subunit SRP72.
Parent gene
- The parent gene g10523 is located on chr_1: 10343550..10345647 (+ 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 | g10523 | g10523.t9 | TSS | g10523.t9 | 10343484 | 10343484 |
| chr_1 | g10523 | g10523.t9 | isoform | g10523.t9 | 10343550 | 10344251 |
| chr_1 | g10523 | g10523.t9 | exon | g10523.t9.exon1 | 10343550 | 10343661 |
| chr_1 | g10523 | g10523.t9 | cds | g10523.t9.CDS1 | 10343550 | 10343661 |
| chr_1 | g10523 | g10523.t9 | exon | g10523.t9.exon2 | 10343722 | 10344251 |
| chr_1 | g10523 | g10523.t9 | cds | g10523.t9.CDS2 | 10343722 | 10344251 |
| chr_1 | g10523 | g10523.t9 | TTS | g10523.t9 | NA | NA |
Sequences
>g10523.t9 Gene=g10523 Length=642
ATGTCGTCTAGAGAAGAAATTAAGGCGCAAAATATAAGGCAATACTATACAGAGTTGAGT
AAATTTGGTCAAGCAGGAGAATATGAAAAAGCAATCAAATCTGCTAATAAAATTATTAGT
ATTGCACCTGAAGAAGTGAAAGCAGTTCATTGCAAATTAGTTTCTTTAATTCAATTATCC
AAATTTGATGAGGCCCTCAAATTTATTGAAAAAACACCTTCTGCTCAATCACTTTTATTT
GAGAAGGCCTATTGTGAATATCGTCTCAATAAACCAGAAGTTGCATTGAAAACAATCGAG
AGTGCAAAAATCAATCCACTTCCACCAAATTTGAAAGAATTAAAAGCTCAAGTTTTATAC
AGATTGGAGCAATTTGATGAATGCTTCAATCTTTATCGTGACATAATTAAAAATTCAACT
GACGATTATGAAGAGGAGAGAACAACGAACTTGTCAGCTGTTTGTGCTAATTTAGCTATA
GAAGGCACTGATAAAAAAATCCCTGAACTTGGAGAGAATACTTATGAATTGGTCTATAAT
TCAGCAGTTGCTCTCTCAGGTATAGGAAAATATAATGAAGCTGAGAAGAAACTTAAAATC
AGTGAAAAGATGTGTCGAGAATTCTTGGAAGAAGACGAAGCA
>g10523.t9 Gene=g10523 Length=214
MSSREEIKAQNIRQYYTELSKFGQAGEYEKAIKSANKIISIAPEEVKAVHCKLVSLIQLS
KFDEALKFIEKTPSAQSLLFEKAYCEYRLNKPEVALKTIESAKINPLPPNLKELKAQVLY
RLEQFDECFNLYRDIIKNSTDDYEEERTTNLSAVCANLAIEGTDKKIPELGENTYELVYN
SAVALSGIGKYNEAEKKLKISEKMCREFLEEDEA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10523.t9 | Coils | Coil | Coil | 191 | 211 | - |
| 4 | g10523.t9 | Gene3D | G3DSA:1.25.40.10 | - | 10 | 162 | 5.5E-57 |
| 2 | g10523.t9 | PANTHER | PTHR14094 | SIGNAL RECOGNITION PARTICLE 72 | 5 | 213 | 3.5E-65 |
| 1 | g10523.t9 | Pfam | PF17004 | Putative TPR-like repeat | 34 | 155 | 3.7E-22 |
| 3 | g10523.t9 | SUPERFAMILY | SSF48452 | TPR-like | 15 | 202 | 2.12E-16 |
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:0006614 | SRP-dependent cotranslational protein targeting to membrane | BP |
| GO:0005515 | protein binding | MF |
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