General information for g3791.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 60S ribosomal protein L10a.
Parent gene
- The parent gene g3791 is located on chr_3: 27969838..27977146 (- 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 | g3791 | g3791.t6 | isoform | g3791.t6 | 27969223 | 27970161 |
| chr_3 | g3791 | g3791.t6 | exon | g3791.t6.exon1 | 27969223 | 27969480 |
| chr_3 | g3791 | g3791.t6 | TTS | g3791.t6 | 27969226 | 27969226 |
| chr_3 | g3791 | g3791.t6 | cds | g3791.t6.CDS1 | 27969436 | 27969480 |
| chr_3 | g3791 | g3791.t6 | exon | g3791.t6.exon2 | 27969532 | 27969853 |
| chr_3 | g3791 | g3791.t6 | cds | g3791.t6.CDS2 | 27969532 | 27969828 |
| chr_3 | g3791 | g3791.t6 | exon | g3791.t6.exon3 | 27970006 | 27970161 |
| chr_3 | g3791 | g3791.t6 | TSS | g3791.t6 | 27970567 | 27970567 |
Sequences
>g3791.t6 Gene=g3791 Length=736
ATCAAAAGTATCAAAGGATATTCTTTATGAATGCGTCAATGAAGTATTGACAAAGTCTCA
AGAAAAGAAGCGTAACTTCTTGGAGACTGTTGAATTGCAAATTGGATTGAAGAACTACGA
TCCACAAAAGGATAAGCGTTTCAGCGGCACTGTCAAGTTGAAGCACATTCCACGTCCAAA
AATGCAAGTTTGCATTTTGGGAGATCAACAACATTGTGACGAAGCTAAGGCAAACGACGT
TCCTTTTATGGACGCTGAAGCTTTGAAAAAACTCAACAAAAACAAGAAGTTGGTCAAGAA
ACTCGCCAAGAAATACGATGCTTTCCTTGCTTCAGAATCATTGATTAAACAAATTCCAAG
ATTGTTGGGTCCAGGTTTGAACAAGGCTGGTAAATTCCCTGGTTTATTGCAACACAATGA
ATCAATGACTCAAAAAATTGATGAAGTTAAGGCAACAATCAAGTTCCAAATGAAGAAGAA
AAGGTCTTGTGTCTCTCAGTCGCTGTTGGTCATGTTAACATGACACCTGATGAGCTCGCT
CAAAATGTTCACTTGTCAATCAACTTCATGGTTTCGCTTTTGAAGAAGCACTGGCAAAAT
GTGCGTTCACTTCATATTAAATCATCAATGGGACCACCACAACGTCTCTATTAAAACACT
TGCATATTACTGTGTTTTTGTATCAATGAAAAATTAACAATTTCAAATAAAATCTAGAAA
TTGAACTGAAACTAAT
>g3791.t6 Gene=g3791 Length=113
MQVCILGDQQHCDEAKANDVPFMDAEALKKLNKNKKLVKKLAKKYDAFLASESLIKQIPR
LLGPGLNKAGKFPGLLQHNESMTQKIDEVKATIKFQMKKKRSCVSQSLLVMLT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g3791.t6 | Gene3D | G3DSA:3.40.50.790 | - | 1 | 93 | 9.7E-40 |
| 2 | g3791.t6 | PANTHER | PTHR23105:SF154 | 60S RIBOSOMAL PROTEIN L10A | 2 | 100 | 2.0E-49 |
| 3 | g3791.t6 | PANTHER | PTHR23105 | RIBOSOMAL PROTEIN L7AE FAMILY MEMBER | 2 | 100 | 2.0E-49 |
| 1 | g3791.t6 | Pfam | PF00687 | Ribosomal protein L1p/L10e family | 2 | 102 | 1.0E-16 |
| 5 | g3791.t6 | ProSitePatterns | PS01199 | Ribosomal protein L1 signature. | 55 | 74 | - |
| 4 | g3791.t6 | SUPERFAMILY | SSF56808 | Ribosomal protein L1 | 1 | 100 | 1.57E-28 |
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.
