General information for g9524.t20
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g9524 is located on chr_1: 3889012..3890129 (- 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 | g9524 | g9524.t20 | isoform | g9524.t20 | 3888292 | 3889610 |
| chr_1 | g9524 | g9524.t20 | TTS | g9524.t20 | 3888292 | 3888292 |
| chr_1 | g9524 | g9524.t20 | exon | g9524.t20.exon1 | 3888292 | 3888673 |
| chr_1 | g9524 | g9524.t20 | exon | g9524.t20.exon2 | 3888871 | 3889080 |
| chr_1 | g9524 | g9524.t20 | cds | g9524.t20.CDS1 | 3888996 | 3889080 |
| chr_1 | g9524 | g9524.t20 | exon | g9524.t20.exon3 | 3889172 | 3889289 |
| chr_1 | g9524 | g9524.t20 | cds | g9524.t20.CDS2 | 3889172 | 3889289 |
| chr_1 | g9524 | g9524.t20 | exon | g9524.t20.exon4 | 3889490 | 3889610 |
| chr_1 | g9524 | g9524.t20 | cds | g9524.t20.CDS3 | 3889490 | 3889610 |
| chr_1 | g9524 | g9524.t20 | TSS | g9524.t20 | 3890000 | 3890000 |
Sequences
>g9524.t20 Gene=g9524 Length=831
ATGGCGGACACAGCTCCAGCCCGTGGTGGGTTTAAACAAGGTTTCGGAGGTGCAGCTGGT
GGTGGTACCGGCGGTGGTGGATCACGAGGAAGAGGTCGACGCGGAGGTCGCGGTGGAAGA
GGTCGTGGCGGACGTGGACGAGGTGACAAAGAAGGAAATCAAAAAGAATGGGTACCAGTC
ACTAAATTGGGTCGTTTAGTTCGTGATGGAAAGATTCGTTCATTGGAAGAAATTTACTTA
AACAAACACGTGCCGGTCAACGTACGCGCTTCAAGGCTTTCGTTGCTATCGGTGATTCAA
ACGGTCACATTGGTCTTGGTGTAAAATGCAGCAAAGAAGTCGCCACTGCTATTCGTGGAG
CTATCATTTTGGCTAAACTTTCAGTAGTTCCGGTTCGTCGTGGTTATTGGGGTAACAAAA
TCGGTAAACCTCATACAGTACCTTGCAAGGTTACTGGCAAATGTGGTTCAGTTCAAGTCA
AATTGATTCCAGCACCAAGAGGAACAGGCATTGTTAGTGCTCCAGTTCCAAAGAAATTAC
TTCAAATGGCTGGTATTGAAGATTGCTACACTCAATGTCGCGGTTCAACTACAACTTTGG
GTAACTTCGCAAAAGCCACTTACTCAGCTATCATGAAGACTTATGCTTTCTTGACACCTG
ATTTGTGGAAAGAAATTCCTTTAAGCAAATCACCATACGAAGTTTATGCTGACTTCCTTG
CGAAACCAGCTGGTAAAACTGGAGGCATTCGCAACATTGATTTGTCTTAAAATGTTAAAA
ATGCCCTTTGAAAAACATTCACAAATAAAATGACATCCATTTTTAAAGTGA
>g9524.t20 Gene=g9524 Length=107
MADTAPARGGFKQGFGGAAGGGTGGGGSRGRGRRGGRGGRGRGGRGRGDKEGNQKEWVPV
TKLGRLVRDGKIRSLEEIYLNKHVPVNVRASRLSLLSVIQTVTLVLV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g9524.t20 | Gene3D | G3DSA:3.30.160.770 | - | 55 | 89 | 3.0E-8 |
| 4 | g9524.t20 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 57 | - |
| 3 | g9524.t20 | MobiDBLite | mobidb-lite | consensus disorder prediction | 42 | 56 | - |
| 1 | g9524.t20 | PANTHER | PTHR13718:SF99 | GENE 8225-RELATED | 17 | 80 | 2.0E-12 |
| 2 | g9524.t20 | PANTHER | PTHR13718 | RIBOSOMAL S SUBUNIT | 17 | 80 | 2.0E-12 |
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 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.
