General information for g12847.t2
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.t2 | TTS | g12847.t2 | 26512037 | 26512037 |
| chr_1 | g12847 | g12847.t2 | isoform | g12847.t2 | 26512106 | 26514047 |
| chr_1 | g12847 | g12847.t2 | exon | g12847.t2.exon1 | 26512106 | 26512189 |
| chr_1 | g12847 | g12847.t2 | cds | g12847.t2.CDS1 | 26512106 | 26512189 |
| chr_1 | g12847 | g12847.t2 | exon | g12847.t2.exon2 | 26512253 | 26513885 |
| chr_1 | g12847 | g12847.t2 | cds | g12847.t2.CDS2 | 26512253 | 26512804 |
| chr_1 | g12847 | g12847.t2 | exon | g12847.t2.exon3 | 26513959 | 26514047 |
| chr_1 | g12847 | g12847.t2 | TSS | g12847.t2 | 26514147 | 26514147 |
Sequences
>g12847.t2 Gene=g12847 Length=1806
ATGGCTCAATCTGTTTCTGTATCAGTTGAAGCGCCAATAGAGAATCAAATTTTATCTATA
GATTATGATGAAACTGAAGTTTATGCGACTCAATTCAATTTTTTCTAAAACAATTGATTC
TACAGAAGAGAATAAAGAAGAAGAGCAAACAATTCAACCTACGTCAAATCCATTTGAAAA
ATATTCTAAACAAATTGAAAGAAGCTTATACAGAAGTTACAGTGCTTCATGATGTATTAA
ATATAGCAAAGGAAAAACATTATTTAGTTCTTTATCCAGTGCTAATTCATGAAGCTATTG
AAGTTAAACCAATGGCTGTTGTCTATGCGAGAAAAAAAGCACTTGGAATGGCGGGTAATA
TTTTGATATCAGGAGCAGAGAGATTAAAAAGACTTGATAATGGTCCAGACTTTCAAATTG
AATTGTTGAGATTAAGACAAAATTGGCGCTTAAAGAAAGTAAGTGATAATATCATTGGTG
ATTTAAGTTTTCGAACAGCTGGATCAAAGTTTATGCATCCTGGTAATTTTGAAGTGTCAA
AAGCCGATGAATCTGAAATGAAAGGACCAAATCCATCAACATTATCAGTTACAATACCGT
CAGATTTACAAGGAGTTGCTTATATAAAAGTTATCACACAAAAAAGATCAAGATGATTTG
TGCTCTGCAAATATAAGCACAATCGATCAAAAATGTAAACTGCAAGTTGGTGAAATCTCT
TCATGGCAAAAGAAACTTGAATTTGCACAAAATGTTTTATTCTGTAAAGAACTTTTTAAT
CAACTTGCACGTGAAGCAGTTCAGCTTCAAGCTACGATTTCGCATGTTGTAATTGGAAAT
CAAATTAGAGCTACATTACTTCCAGGCATTCAACTTATCATTAGTTTTATGTCATTCAAA
TTCTTACCAAGAATTTCAAGAGGAGACTAAGAAAAAAGTTGATGATTTACACGACCATGT
ACTTGAGCATTCTTTGCATCAACTTCTTCGTGAGATACATTATAAAAATGTGCATTTTCC
AATTCCACATTCAGGTCATCCAATTGGTATTGCTAAAAAAGATTATTGGCTGGTCCACAC
TCTTATGATCGTCATGAATTGTGGGAAATTACAAAGAGTCAAAATCAGACATTACTTGAA
CAAATAATTGCACAAGCTCAACATGTATTTATGAGAAAAAGAACTCAATATGTACTCGAT
ACTCTTGCAAGAGATGTTAAAGATCCACAAATCACATCACACTGGAATGCTCTTAATTCA
CCAACATTATCATGGGTGAAAATTAATATTACAACACACGGATATGATACAATTACAAGA
ACATCATTAGTGATTCATGTAAAAGAAAGATCGTTAAAAGCAATTTGTAGAGATGGTCGA
GTTATGCATATGTCTTATGAACCTCAAGAACTTCGTGATTTAATTCTACAGCAAAATTGT
CAGCATCAAATAAGTGGATTACAAAATTTGAGTCGTTGTATGGCATGGCAATTGCTTTCA
AATTCAAATCATTTAGGAATTGGCGATGTAGAACCACTTGGAAATGCAAATTCAATTTTA
ATTTCTTCTCCACTTGGTGATCGTGTGATTGCAGTTCAAGTGAGATGTGATCCACAAATT
GTTGTGAAAGTTTATGTTTTACACAGTCCTAAAGAATTTTTCACAAGTGGTCCATTGGTA
CAAGGAAAACATTGGGAAAATCTCGGTAGTGAATTTAAAGAGGTAAATTTCGAAAAGATG
GAAGGAAGAAATTTTCTCAATAAAATGGAATTCTTGATGGCTGCTCTCACTAAAATTAAG
GAATAA
>g12847.t2 Gene=g12847 Length=211
MRKRTQYVLDTLARDVKDPQITSHWNALNSPTLSWVKINITTHGYDTITRTSLVIHVKER
SLKAICRDGRVMHMSYEPQELRDLILQQNCQHQISGLQNLSRCMAWQLLSNSNHLGIGDV
EPLGNANSILISSPLGDRVIAVQVRCDPQIVVKVYVLHSPKEFFTSGPLVQGKHWENLGS
EFKEVNFEKMEGRNFLNKMEFLMAALTKIKE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g12847.t2 | PANTHER | PTHR13114 | MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 17 | 2 | 207 | 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.
