General information for g12847.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Mediator of RNA polymerase II transcription subunit 17.
Parent gene
- The parent gene g12847 is located on chr_1: 26512106..26514047 (- 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 | g12847 | g12847.t1 | TTS | g12847.t1 | 26512037 | 26512037 |
| chr_1 | g12847 | g12847.t1 | isoform | g12847.t1 | 26512106 | 26514047 |
| chr_1 | g12847 | g12847.t1 | exon | g12847.t1.exon1 | 26512106 | 26512189 |
| chr_1 | g12847 | g12847.t1 | cds | g12847.t1.CDS1 | 26512106 | 26512189 |
| chr_1 | g12847 | g12847.t1 | exon | g12847.t1.exon2 | 26512253 | 26512913 |
| chr_1 | g12847 | g12847.t1 | cds | g12847.t1.CDS2 | 26512253 | 26512913 |
| chr_1 | g12847 | g12847.t1 | exon | g12847.t1.exon3 | 26513377 | 26513849 |
| chr_1 | g12847 | g12847.t1 | cds | g12847.t1.CDS3 | 26513377 | 26513849 |
| chr_1 | g12847 | g12847.t1 | exon | g12847.t1.exon4 | 26513970 | 26514047 |
| chr_1 | g12847 | g12847.t1 | cds | g12847.t1.CDS4 | 26513970 | 26514047 |
| chr_1 | g12847 | g12847.t1 | TSS | g12847.t1 | 26514147 | 26514147 |
Sequences
>g12847.t1 Gene=g12847 Length=1296
ATGGCTCAATCTGTTTCTGTATCAGTTGAAGCGCCAATAGAGAATCAAATTTTATCTATA
GATTATGATGAAACTGAAAAGAGAATAAAGAAGAAGAGCAAACAATTCAACCTACGTCAA
ATCCATTTGAAAAATATTCTAAACAAATTGAAAGAAGCTTATACAGAAGTTACAGTGCTT
CATGATGTATTAAATATAGCAAAGGAAAAACATTATTTAGTTCTTTATCCAGTGCTAATT
CATGAAGCTATTGAAGTTAAACCAATGGCTGTTGTCTATGCGAGAAAAAAAGCACTTGGA
ATGGCGGGTAATATTTTGATATCAGGAGCAGAGAGATTAAAAAGACTTGATAATGGTCCA
GACTTTCAAATTGAATTGTTGAGATTAAGACAAAATTGGCGCTTAAAGAAAGTAAGTGAT
AATATCATTGGTGATTTAAGTTTTCGAACAGCTGGATCAAAGTTTATGCATCCTGGTAAT
TTTGAAGTGTCAAAAGCCGATGAATCTGAAATGAAAGGACCAAATCCATCAACATTATCA
GTTACAATACCATTATTGGCTGGTCCACACTCTTATGATCGTCATGAATTGTGGGAAATT
ACAAAGAGTCAAAATCAGACATTACTTGAACAAATAATTGCACAAGCTCAACATGTATTT
ATGAGAAAAAGAACTCAATATGTACTCGATACTCTTGCAAGAGATGTTAAAGATCCACAA
ATCACATCACACTGGAATGCTCTTAATTCACCAACATTATCATGGGTGAAAATTAATATT
ACAACACACGGATATGATACAATTACAAGAACATCATTAGTGATTCATGTAAAAGAAAGA
TCGTTAAAAGCAATTTGTAGAGATGGTCGAGTTATGCATATGTCTTATGAACCTCAAGAA
CTTCGTGATTTAATTCTACAGCAAAATTGTCAGCATCAAATAAGTGGATTACAAAATTTG
AGTCGTTGTATGGCATGGCAATTGCTTTCAAATTCAAATCATTTAGGAATTGGCGATGTA
GAACCACTTGGAAATGCAAATTCAATTTTAATTTCTTCTCCACTTGGTGATCGTGTGATT
GCAGTTCAAGTGAGATGTGATCCACAAATTGTTGTGAAAGTTTATGTTTTACACAGTCCT
AAAGAATTTTTCACAAGTGGTCCATTGGTACAAGGAAAACATTGGGAAAATCTCGGTAGT
GAATTTAAAGAGGTAAATTTCGAAAAGATGGAAGGAAGAAATTTTCTCAATAAAATGGAA
TTCTTGATGGCTGCTCTCACTAAAATTAAGGAATAA
>g12847.t1 Gene=g12847 Length=431
MAQSVSVSVEAPIENQILSIDYDETEKRIKKKSKQFNLRQIHLKNILNKLKEAYTEVTVL
HDVLNIAKEKHYLVLYPVLIHEAIEVKPMAVVYARKKALGMAGNILISGAERLKRLDNGP
DFQIELLRLRQNWRLKKVSDNIIGDLSFRTAGSKFMHPGNFEVSKADESEMKGPNPSTLS
VTIPLLAGPHSYDRHELWEITKSQNQTLLEQIIAQAQHVFMRKRTQYVLDTLARDVKDPQ
ITSHWNALNSPTLSWVKINITTHGYDTITRTSLVIHVKERSLKAICRDGRVMHMSYEPQE
LRDLILQQNCQHQISGLQNLSRCMAWQLLSNSNHLGIGDVEPLGNANSILISSPLGDRVI
AVQVRCDPQIVVKVYVLHSPKEFFTSGPLVQGKHWENLGSEFKEVNFEKMEGRNFLNKME
FLMAALTKIKE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g12847.t1 | PANTHER | PTHR13114 | MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 17 | 44 | 184 | 0 |
| g12847.t1 | PANTHER | PTHR13114 | MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 17 | 202 | 427 | 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.
