General information for g12102.t41
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 60S ribosomal protein L7a.
Parent gene
- The parent gene g12102 is located on chr_1: 20940128..20940500 (+ 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 | g12102 | g12102.t41 | TSS | g12102.t41 | 20939009 | 20939009 |
| chr_1 | g12102 | g12102.t41 | isoform | g12102.t41 | 20939077 | 20940413 |
| chr_1 | g12102 | g12102.t41 | exon | g12102.t41.exon1 | 20939077 | 20939086 |
| chr_1 | g12102 | g12102.t41 | exon | g12102.t41.exon2 | 20939358 | 20939631 |
| chr_1 | g12102 | g12102.t41 | exon | g12102.t41.exon3 | 20939691 | 20939911 |
| chr_1 | g12102 | g12102.t41 | exon | g12102.t41.exon4 | 20940108 | 20940413 |
| chr_1 | g12102 | g12102.t41 | cds | g12102.t41.CDS1 | 20940141 | 20940413 |
| chr_1 | g12102 | g12102.t41 | TTS | g12102.t41 | 20940505 | 20940505 |
Sequences
>g12102.t41 Gene=g12102 Length=811
ATGGTCGCTACCAGTAAGCAAAAAGAAGGTTGTTGGTAAAAAAGTGGCTGCTGCTCCTCT
TTCAAAATCAGCAGTACAAAAGAAAACTGCTAGCAATCCATTGTTCGAAAAACGTCCCAA
GAATTATGGTATTGGTCAAAACGTTCAACCAAAACGTGATCTATCACGTTTCGTTAGATG
GCCAAAATATATTCGTATTCAGCGCCATAAAGCTATCTTGCAAAAAAGATTGAAGGTTCC
ACCACCAATTAATCAATTTTCTCAAGCTTTAGATAAGCAAACAGCCGTTCAATTATTTAA
AGTTTTGGAAAAATATCGTCCAGAATCAAAGTTGCAAAAAGCTGCTCGTTTGAAGAAAAA
GGCTGAAGAAAAGGTTGCAGGCAAGGATGATGCTCCATCAAAGAAGAAATTGACATTGAG
AGCTGGTTGCAACACAGTCACCAAGTTGGTTGAGCAAAAGAAGGCACAATTAGTTGTCAT
CTCACATGACGTTGATCCAATCGAATTGGTTCTCTTTTTGCCAGCCTTATGCCGTAAAAT
GGGAGTTCCATATTGCATCGTAAAGGGCAAATCACGATTGGGACGTTTGGTTCATCGCAA
AACATGCACAACTTTAGCTTTGTGCAATGTTGATAATGCTGATCGCGCAAACTTCTCAAA
GATCGTGGAATCAATTAAGACCAACTATAATGATCGTTATGATGAAATTCGTCGTCATTG
GGGTGGTGGTTTACTCGGACCAAAATCAATGGCTCGTATTGCTAAGGTTGAAAAGGCTAA
AGCTCGTGAATTAGCCCAAAAACAAGGATAA
>g12102.t41 Gene=g12102 Length=90
MGVPYCIVKGKSRLGRLVHRKTCTTLALCNVDNADRANFSKIVESIKTNYNDRYDEIRRH
WGGGLLGPKSMARIAKVEKAKARELAQKQG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g12102.t41 | Gene3D | G3DSA:3.30.1330.210 | - | 1 | 84 | 0.0e+00 |
| 2 | g12102.t41 | PANTHER | PTHR23105:SF159 | 60S RIBOSOMAL PROTEIN L7A | 1 | 87 | 0.0e+00 |
| 3 | g12102.t41 | PANTHER | PTHR23105 | RIBOSOMAL PROTEIN L7AE FAMILY MEMBER | 1 | 87 | 0.0e+00 |
| 5 | g12102.t41 | PRINTS | PR00882 | Ribosomal protein L7A family signature | 17 | 41 | 0.0e+00 |
| 4 | g12102.t41 | PRINTS | PR00882 | Ribosomal protein L7A family signature | 49 | 69 | 0.0e+00 |
| 1 | g12102.t41 | Pfam | PF01248 | Ribosomal protein L7Ae/L30e/S12e/Gadd45 family | 1 | 36 | 7.2e-05 |
| 6 | g12102.t41 | SUPERFAMILY | SSF55315 | L30e-like | 1 | 62 | 0.0e+00 |
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. There were no conditions that were differentially expressed