General information for g3669.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Mediator of RNA polymerase II transcription subunit 16.
Parent gene
- The parent gene g3669 is located on chr_3: 27305855..27306438 (+ 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 | g3669 | g3669.t3 | TSS | g3669.t3 | 27302865 | 27302865 |
| chr_3 | g3669 | g3669.t3 | isoform | g3669.t3 | 27303737 | 27305080 |
| chr_3 | g3669 | g3669.t3 | exon | g3669.t3.exon1 | 27303737 | 27304258 |
| chr_3 | g3669 | g3669.t3 | exon | g3669.t3.exon2 | 27304347 | 27305080 |
| chr_3 | g3669 | g3669.t3 | cds | g3669.t3.CDS1 | 27304575 | 27305078 |
| chr_3 | g3669 | g3669.t3 | TTS | g3669.t3 | NA | NA |
Sequences
>g3669.t3 Gene=g3669 Length=1256
ATGGAACCATTCTTTAATTTACAACACAACAAGATTGTGATGAGAAAAGATGATGTTTTT
GGACGATTTGAAAACTTTTGTAAAGTTTCTTCTTCAAACCTAATCGCTTTTACATCTGAA
ACCAACATTCAAACAGGTAAATTTTTCTTATAAATGACTATAACTTAATTAATTTTTTTA
TAAATATTTCCTTCAGGAGAAAAAGGATATTTTATTTATGTTTTTGATTTAAACATTCCA
TGGAGTTGTTTTCAAGTTGCTTTTAAGAATTCAAAAGTAACAGTTTTACAGTGGGATCAA
AGTGGATCATACCTCCTAGTTGGCAGTGTTGGAAATGTCTCTATATACGCTCAAAAAAAT
AATTTAATAGATCAATGGCATGAAATTTATGCTGTTTCTTTTCAAAACGAAAATATTATT
TCTGCAAAGTTCTTTTTCAATGGCATTAAATATAAATATCAACCAGAACAAGTGCTTTAT
TCAGAAAAATATCAAAAATCAAAAAGTCAGCCCACTGTTAAGGGATTTGGTAGTTCTGCA
TGCTTTGGATGTATAATAATTACATCTACTGGCTTAATTGGTGCATTCTCATTTGATATT
AACACATCTAGCACAACAAATAACAACGTAGAGCCTTGTCGTTTTACGAAAAATCTTGGA
CAAAATAGATGTATTTATACAAACGCTGATATTTCCTTCAAAAATGGACAATTTTATGTT
GCTGCCACAAACAATGGCCAAAAAAATCCTATGATACAATGCTTTAGAGTGCATATAGAA
AAAGTAGATGAAGAGTTGATTATTAACAGCAAGCCACTTCCAAGCTTTTTTGTCAATGAA
AATGCTTCTATTAAAGACATGATTGATCTTAAACTTTATAAACTAAAATGGATAAACCAA
GAAGATGCAGATTCACTTATAATTTCTTCAAATCACATGACAGGAAGTATAGTTGAAATA
TGGACTTTAAAAGAGGAATCAACAACAGTTCATAAACTTTTTCAAACAAATAAAAGTGAA
AGTTATAAAACTCTAATGTGGGTTAATCAACCACATAATTATCGTCACAGTAGAAAAGTT
CTCGACGTAATTACAACAAAAATTCAATTTGGGCCTAACTTTTATTTTTTCATTGCTTAT
CAAGACAGTTCAATTCATTGTCTCAATCGTGATGGACTTAAACGTGTTTCAATTACAAAT
TTAAATTTTAGTGCATCTGCACTTGAACATCAAACAAAAATTATAAAAATGACTTC
>g3669.t3 Gene=g3669 Length=168
MIQCFRVHIEKVDEELIINSKPLPSFFVNENASIKDMIDLKLYKLKWINQEDADSLIISS
NHMTGSIVEIWTLKEESTTVHKLFQTNKSESYKTLMWVNQPHNYRHSRKVLDVITTKIQF
GPNFYFFIAYQDSSIHCLNRDGLKRVSITNLNFSASALEHQTKIIKMT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3669.t3 | PANTHER | PTHR13224 | THYROID HORMONE RECEPTOR-ASSOCIATED PROTEIN-RELATED | 2 | 152 | 0 |
| 1 | g3669.t3 | Pfam | PF11635 | Mediator complex subunit 16 | 1 | 149 | 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:0016592 | mediator complex | CC |
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.
