General information for g228.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Mediator of RNA polymerase II transcription subunit 17.
Parent gene
- The parent gene g228 is located on chr_3: 1877661..1883015 (- 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 | g228 | g228.t5 | isoform | g228.t5 | 1875228 | 1879049 |
| chr_3 | g228 | g228.t5 | exon | g228.t5.exon1 | 1875228 | 1875327 |
| chr_3 | g228 | g228.t5 | exon | g228.t5.exon2 | 1875391 | 1875492 |
| chr_3 | g228 | g228.t5 | cds | g228.t5.CDS1 | 1875455 | 1875492 |
| chr_3 | g228 | g228.t5 | exon | g228.t5.exon3 | 1878402 | 1878793 |
| chr_3 | g228 | g228.t5 | cds | g228.t5.CDS2 | 1878402 | 1878793 |
| chr_3 | g228 | g228.t5 | exon | g228.t5.exon4 | 1878853 | 1879049 |
| chr_3 | g228 | g228.t5 | cds | g228.t5.CDS3 | 1878853 | 1878872 |
| chr_3 | g228 | g228.t5 | TSS | g228.t5 | 1879138 | 1879138 |
| chr_3 | g228 | g228.t5 | TTS | g228.t5 | NA | NA |
Sequences
>g228.t5 Gene=g228 Length=791
ATGGCTCAATCTGTTTCTGTATCAGTTGAAGCGCCAATAGAAAATCAAATTTTATCTATA
GATTATGATGGAACTGAAGTTTATGCGACGTAAGTTTAGTGCTGATTCTTATGAAAATAT
CATTTTATCTATACTTTATTTTCAGACCTTTAACTCAATCAGAATATCTTACACGCAATG
CAGCTCGCATTAATTTTATCAAATCCATTTGAAAATATTCTAAACAAATTGAAAGAAGCT
TATACAGAAGTTACAGTGCTTCATGATGTATTGAGTATAGCAAAGGAAAAACATTATTTA
GTTCTTGATCCAGTTCCAATTCATGAACCTATTGAAGTTAAACCAATGGCTGTTGTCTAT
GCGAGAAAAAAAGCACTTGGAATGGCGGGTAATATTTTGATATCAGGTGCAGAGAGATTA
AAAAGACTTGATAATGGTCCAGACTTTCAAATTGAATTGTTGAGATTAAGACAAAATTGG
CGCTTAAAGAAAGTAAGTGATAATATTATTGGTGATTTGAGTTTTCGAACAGCTGGATCA
AAGTTTATGCATCCTGGTAATTTTGAAGTGTCAAAAGCCGATGAATCTGCAAGAGGATGC
TTGTTAAGCATAGAATTGGGAATGTAATGATCAAAATTTTTATAGAGACCATTTGAATCA
TTTTTAGTTGCAAATGATGCTAGATAGTCTGAATAAATACCGATAACTGTAAGTAAAATA
TTATCCAATAAAAGTGTTGCATAGATGATAGACGTTATTGCAAATCGATTCTTATTAAAT
TCACTTTCCAT
>g228.t5 Gene=g228 Length=149
MQLALILSNPFENILNKLKEAYTEVTVLHDVLSIAKEKHYLVLDPVPIHEPIEVKPMAVV
YARKKALGMAGNILISGAERLKRLDNGPDFQIELLRLRQNWRLKKVSDNIIGDLSFRTAG
SKFMHPGNFEVSKADESARGCLLSIELGM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g228.t5 | PANTHER | PTHR13114 | MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 17 | 9 | 136 | 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:0006357 | regulation of transcription by RNA polymerase II | BP |
| GO:0016592 | mediator complex | CC |
| GO:0003712 | transcription coregulator activity | 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. There were no conditions that were differentially expressed