General information for g11138.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g11138 is located on chr_1: 14309496..14311841 (+ 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 | g11138 | g11138.t4 | isoform | g11138.t4 | 14305385 | 14306577 |
| chr_1 | g11138 | g11138.t4 | exon | g11138.t4.exon1 | 14305385 | 14306294 |
| chr_1 | g11138 | g11138.t4 | cds | g11138.t4.CDS1 | 14305870 | 14306294 |
| chr_1 | g11138 | g11138.t4 | exon | g11138.t4.exon2 | 14306349 | 14306577 |
| chr_1 | g11138 | g11138.t4 | cds | g11138.t4.CDS2 | 14306349 | 14306577 |
| chr_1 | g11138 | g11138.t4 | TTS | g11138.t4 | 14307261 | 14307261 |
| chr_1 | g11138 | g11138.t4 | TSS | g11138.t4 | NA | NA |
Sequences
>g11138.t4 Gene=g11138 Length=1139
AAATGTCTATGACCGCATTTTTTCTCATTTTTGATGCATTAGCTTTTACTTATTTTCAAT
CAATTTAATGTCAATTTTCAATTTTCTTACCTTTATTTGTAGTTTTAATTAGTTAATTTA
TCAAAATGTAAGTTTATAATCACTTATAAAATATAGTTTTAAGGACTTGAGATCTGCTCT
TAATTAGAATGCAACTTATCGACTTGAATTTTTGACTCAAACTGAAATCTTCGGCAACTT
TCGGGTCTTTTTATACCTTTTGAAATTTCCCACACCGCAGCTTAATTCGTAAAAGATTTG
AATTTTCGAAGTTCGTTGATGATGAAAAAAATTTATCATTATAGATAAATTGATATAATT
AAAATCTTTGATAAAATCATTTAAATCAGCTATATTAGTACTACTTCTTATCTCTCTTTA
ATAAAAAAGATTTTTTCATAATTACATCTGCAGAAAAAAAATATTTTTTTTAATTTCGAA
AAACAATGATTTCGCGTGTGATTTTTTGTAAAAATAAAAATTTTCAATTAATACGATATT
TATCAACTGCCTTGCAGCATGAAACAGCTACAACAACGGTGGAGTATCCACCTATCATTG
ACATGTCTAAAGAGGCAAAAGAAATGAGGAAAAAACTAGAATGGCATGATAAAATTAAGC
GGTCACCTACTATAGAAGAGAAAATTATTCAAATAAATATGCCTCGATTCTATGGATTTA
AATGTCTGATGCTTGATGGAACAAAATATCCTTACAATTCAAATGATTTTATCAAATATA
TAACCAAGACAGAGTTCCAAGAATTAGCAAACAAAATCGATGAAAAAGAGTCGAAAAAAA
TTGATGGATTCTTAAATCTCATTAAATCTGATATTCAAGATGCAATTGAATTTGAAATTG
ATTCTTGCAATCATTATTTCGATGATTCAATGCATCCAAGAGAGATACAGCGAGAAAAAG
CAAGTCGTTTAGTTAAACAGTTGAATAGAATTCTTATTTCTGCTCTTGGCGCTGACAACC
ATCATCTTTTCGAAGCAGACACTGATATTGATCCAAGAGTAGAAGCATTTTGGTTCGTTG
GTCGTTTTGTTCCGCCAAAGAGAGTTCAATTTTGGCGAAGTATGAAAGATCATCTTAAA
>g11138.t4 Gene=g11138 Length=218
MISRVIFCKNKNFQLIRYLSTALQHETATTTVEYPPIIDMSKEAKEMRKKLEWHDKIKRS
PTIEEKIIQINMPRFYGFKCLMLDGTKYPYNSNDFIKYITKTEFQELANKIDEKESKKID
GFLNLIKSDIQDAIEFEIDSCNHYFDDSMHPREIQREKASRLVKQLNRILISALGADNHH
LFEADTDIDPRVEAFWFVGRFVPPKRVQFWRSMKDHLK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g11138.t4 | PANTHER | PTHR13014 | MITOCHONDRIAL 28S RIBOSOMAL PROTEIN S30/P52 PRO-APOTOTIC PROTEIN | 21 | 211 | 0 |
| 1 | g11138.t4 | Pfam | PF07147 | Mitochondrial 28S ribosomal protein S30 (PDCD9) | 11 | 208 | 0 |
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:0005739 | mitochondrion | CC |
| 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.
