General information for g8531.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 40S ribosomal protein S17.
Parent gene
- The parent gene g8531 is located on chr_2: 31137251..31144643 (+ 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 | g8531 | g8531.t9 | isoform | g8531.t9 | 31136982 | 31144643 |
| chr_2 | g8531 | g8531.t9 | exon | g8531.t9.exon1 | 31136982 | 31137004 |
| chr_2 | g8531 | g8531.t9 | exon | g8531.t9.exon2 | 31137231 | 31137404 |
| chr_2 | g8531 | g8531.t9 | cds | g8531.t9.CDS1 | 31137251 | 31137404 |
| chr_2 | g8531 | g8531.t9 | exon | g8531.t9.exon3 | 31137556 | 31137901 |
| chr_2 | g8531 | g8531.t9 | cds | g8531.t9.CDS2 | 31137556 | 31137791 |
| chr_2 | g8531 | g8531.t9 | TTS | g8531.t9 | 31137881 | 31137881 |
| chr_2 | g8531 | g8531.t9 | exon | g8531.t9.exon4 | 31144604 | 31144643 |
| chr_2 | g8531 | g8531.t9 | TSS | g8531.t9 | NA | NA |
Sequences
>g8531.t9 Gene=g8531 Length=583
ATTTTCTCATTTCTTTGAGTGAGCTACCAGAAATTGTTAAAATATGGGTCGCGTCCGTAC
AAAGACAGTTAAAAAGGCCTCAAAAGTCATTATCGAGAAATATTATACTCGACTGACTTT
GGATTTCCACACAAACAAGCGCATTGTTGAAGAAGTTTCAATTATTCCAACAAAGCCTTT
AAGAAACAAGATTGCGGGCTTTGTCACCCATTTGATGAAACGTCTACGCCATTCACAAGT
TCGTGGTATTTCAATTAAATTGCAAGAAGAGGAACGTGAAAGACGCGACAACTACGTCCC
AGATGTTTCAGCACTTGAACAGGATATCATTGAGGTTGATCCAGAGACAAAGGAGATGTT
GAAGATGCTCGAGTTCCACAACATTACTGGCTTGCAATTAACTCAACCACAGCAACAATT
CAACCGTCGTTAAATGTAACGATCAGAAATGGATTTTTTTTTGTATAATCTTATATTTCA
ATTACCATCAATTACAAGAAATATAAAAAGATAATAATACAACAACCTGTCACTATTTAT
TCATTTTCGATCGTCCAAAGTTAACCAACGTCTTCTGTAAGCA
>g8531.t9 Gene=g8531 Length=129
MGRVRTKTVKKASKVIIEKYYTRLTLDFHTNKRIVEEVSIIPTKPLRNKIAGFVTHLMKR
LRHSQVRGISIKLQEEERERRDNYVPDVSALEQDIIEVDPETKEMLKMLEFHNITGLQLT
QPQQQFNRR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g8531.t9 | Gene3D | G3DSA:1.10.60.20 | - | 1 | 62 | 2.2E-34 |
| 3 | g8531.t9 | Hamap | MF_00511 | 30S ribosomal protein S17e [rps17e]. | 1 | 63 | 19.384964 |
| 2 | g8531.t9 | PANTHER | PTHR10732 | 40S RIBOSOMAL PROTEIN S17 | 1 | 126 | 5.4E-63 |
| 1 | g8531.t9 | Pfam | PF00833 | Ribosomal S17 | 1 | 121 | 7.8E-62 |
| 5 | g8531.t9 | ProSitePatterns | PS00712 | Ribosomal protein S17e signature. | 41 | 56 | - |
| 4 | g8531.t9 | SUPERFAMILY | SSF116820 | Rps17e-like | 1 | 61 | 9.42E-25 |
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:0005840 | ribosome | CC |
| GO:0006412 | translation | BP |
| GO:0003735 | structural constituent of ribosome | MF |
KEGG
Orthology
- This transcript has been annotated with K02962 (small subunit ribosomal protein S17e)
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.
