General information for g3384.t64
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 60S acidic ribosomal protein P0.
Parent gene
- The parent gene g3384 is located on chr_3: 25010458..25011604 (- 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_3 | g3384 | g3384.t64 | TTS | g3384.t64 | 25009832 | 25009832 |
| chr_3 | g3384 | g3384.t64 | isoform | g3384.t64 | 25010043 | 25011604 |
| chr_3 | g3384 | g3384.t64 | exon | g3384.t64.exon1 | 25010043 | 25010140 |
| chr_3 | g3384 | g3384.t64 | cds | g3384.t64.CDS1 | 25010043 | 25010140 |
| chr_3 | g3384 | g3384.t64 | exon | g3384.t64.exon2 | 25010203 | 25010898 |
| chr_3 | g3384 | g3384.t64 | cds | g3384.t64.CDS2 | 25010203 | 25010878 |
| chr_3 | g3384 | g3384.t64 | exon | g3384.t64.exon3 | 25011273 | 25011370 |
| chr_3 | g3384 | g3384.t64 | exon | g3384.t64.exon4 | 25011567 | 25011604 |
| chr_3 | g3384 | g3384.t64 | TSS | g3384.t64 | 25011604 | 25011604 |
Sequences
>g3384.t64 Gene=g3384 Length=930
CTTTTTCGTTCAGAAATTTATTGAATACACACGTCTTGTTCTTTAAATCTGAAATCAGTA
CCTTACTAATAATTCAAAATGGTTAGGGAGAACAAGGCCACCTGGAAAGCTAACTACTTC
TTAAAAGTCGTGGTAATCTTGATGGGCAAGAACACTATGATGCGTAAAGCCATTAAGGGC
CATTTGGAAAACAATCAAGCCCTCGACAGAATTTTACCACACATTCGTGGTAATGTTGGT
TTCGTTTTCACAAAGGGAGATTTGAATGAAGTTCGCGAAAAGTTGTTGCAAAACAAAGTT
CGTGCTCCTGCTCGTGCTGGCGCAATTGCTCCTTGTGAAGTAATTATTCCTGCTCAAAAT
ACTGGTTTGGGTCCAGAAAAAACAAGTTTCTTCCAAGCTCTTTCAATTCCAACAAAGATT
TCAAAGGGTACTATTGAAATTATCAATGATGTGCCCATCTTAAAGCCTGGTGACAAAGTC
GGTGCTTCTGAAGCTACTTTGCTCAACATGTTGAACATCTCTCCATTCTCATATGGTTTG
GTAATTGAGCAAGTTTATGATTCAGGAAGCATCTTCTCTCCAAATATCTTGGACATCAAA
CCAGAAGATTTGCGTGCTAAATTCCAACAAGGAGTTGCAAACGTTGCCGCTCTTTCATTG
GCTATGGGCTATCCAACAATTGCCTCTGCTCCACATTCAATTGCCAATGGTTTCAAGAAC
TTGCTCGCTATCGCAGCTGTTACCGATGTCGAATTCAAGCAGGCTGAAACTGTTAAAGAA
TTCCTTAAGGATCCATCTAAGTTTGCCGCTGCTGCTGCTGCATCAGCTCCAGCTGCTTCT
GCCGCTGCACCAGCTGCTAAAGCTGAAGCCAAGAAAGAAGAGTCAGAACCAGAGTCTGAT
GACGACATGGGATTCGGACTTTTTGATTAA
>g3384.t64 Gene=g3384 Length=257
MMRKAIKGHLENNQALDRILPHIRGNVGFVFTKGDLNEVREKLLQNKVRAPARAGAIAPC
EVIIPAQNTGLGPEKTSFFQALSIPTKISKGTIEIINDVPILKPGDKVGASEATLLNMLN
ISPFSYGLVIEQVYDSGSIFSPNILDIKPEDLRAKFQQGVANVAALSLAMGYPTIASAPH
SIANGFKNLLAIAAVTDVEFKQAETVKEFLKDPSKFAAAAAASAPAASAAAPAAKAEAKK
EESEPESDDDMGFGLFD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g3384.t64 | CDD | cd05795 | Ribosomal_P0_L10e | 1 | 123 | 2.22248E-70 |
| 7 | g3384.t64 | Gene3D | G3DSA:3.90.105.20 | - | 51 | 123 | 2.7E-32 |
| 6 | g3384.t64 | MobiDBLite | mobidb-lite | consensus disorder prediction | 225 | 257 | - |
| 3 | g3384.t64 | PANTHER | PTHR45699 | 60S ACIDIC RIBOSOMAL PROTEIN P0 | 1 | 257 | 3.4E-114 |
| 4 | g3384.t64 | PANTHER | PTHR45699:SF3 | 60S ACIDIC RIBOSOMAL PROTEIN P0 | 1 | 257 | 3.4E-114 |
| 1 | g3384.t64 | Pfam | PF17777 | Insertion domain in 60S ribosomal protein L10P | 52 | 121 | 3.8E-22 |
| 2 | g3384.t64 | Pfam | PF00428 | 60s Acidic ribosomal protein | 172 | 256 | 1.1E-18 |
| 5 | g3384.t64 | SUPERFAMILY | SSF160369 | Ribosomal protein L10-like | 2 | 73 | 8.5E-5 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
