General information for g9812.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Mediator of RNA polymerase II transcription subunit 12.
Parent gene
- The parent gene g9812 is located on chr_1: 5365304..5368794 (+ 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 | g9812 | g9812.t4 | TSS | g9812.t4 | 5355892 | 5355892 |
| chr_1 | g9812 | g9812.t4 | isoform | g9812.t4 | 5355995 | 5358011 |
| chr_1 | g9812 | g9812.t4 | exon | g9812.t4.exon1 | 5355995 | 5357342 |
| chr_1 | g9812 | g9812.t4 | cds | g9812.t4.CDS1 | 5355995 | 5357342 |
| chr_1 | g9812 | g9812.t4 | exon | g9812.t4.exon2 | 5357793 | 5358011 |
| chr_1 | g9812 | g9812.t4 | cds | g9812.t4.CDS2 | 5357793 | 5357824 |
| chr_1 | g9812 | g9812.t4 | TTS | g9812.t4 | NA | NA |
Sequences
>g9812.t4 Gene=g9812 Length=1567
ATGTTTAGCGAGGCATATCTTGAGAAGCGTCCGCTAAAGAGGCCAAAATTAGGCCCGGCA
GACGTCTATCCGCAAGAAGTAAAGCAAAAAGAAGATGAGTTAACTTCTCTCAATGTAAAA
CACGGCTTTTCAGCCACGATTCAATCGAGTGAAGAATTTGGGACTGCCAGAAATTGTAAT
GTGACCGCCTCAAAGGTTGGCGCATATTTCAATGCAATTTTGGCCAAAAAAGAAGAACTT
GCGACGTTAACTGACTCAGGGCGTAAAAAACAACACGTAAAAGATAACTTTTGGCCTGTA
ACTCAAAGAACTAAGCAAACTTTAGACAATTGGTTTAAGGATTTAGCTGGAAATAAACCA
TTAAGTAGTTTAGCTAAGAAAGCACCGTCATTTAATAAAAAAGAGGAAATTTTCGCAATG
CTCTGTGAAAATCAAGTTACAATGCAAAGAGCTGCATGGTTTATTAAACTTTCATCAGCT
TATACAGTTGCAGTGTCAGAAGCGAAAATTAAAAAACGACAAATGCCTGATCCAGCAACT
GAATGGACAGGAACAATGATTAAATTTTTAAAAGATTTAGTACCGAAATTGCTTGAATAT
TATCATACAGGACCACCAATTGAAAAACCTTCATCAAACATTTCTTCTAATACTAATCCT
TCATCTAATCTCAATACAAGTTCTTCCTCATCTACATCAACATTAACTATACCACCGCCT
CTTGCTAGTCCAGCTGGTTCTTCGTCTACAAGCACTTCATTAATTCCAATTCCAGCAACA
CCACAAGAGGAGCAAAAATTGGCTTTAAAACAATGGAATTATTGTACGCAATTGTGTAAA
TACATGTTTGAGGAAGGACTTTTAGATAAACATGAGTTTCTAAATTGGATCCTTGAATTA
CTTGATAAACTTAGAACTCAGCCACAAAGTGAAGATGGAATACTCAAGCTTTATCTGCCA
CTAACTTTAGCTTATATGCAAGATTTTGTCATGTCAGAGCGATTGTCTAGAAAATTGGCA
TATTTATCAGCTAAAAAGCTCTCATCAATGCTTAATGACATGTTAAATCATATTATTATA
GATGGTAATAAAAATGATCAGAATTCAGAAAATAAGACTGGTGAAAATGGAGAAATAAAA
AATTTGAACCCTTATGAGAAGGCACTTGAAGAATATTTGACTTGTTGTCAACATAGAGAC
ATAATTATGCAATTGAGTTGTATTTTACAAGTTATAACACTTGATTGCCCAACAGCACTT
ATTTGGAGTGGTGTGGGTGAGAATCGACAATCGACATTGACCGGTAGTCCGCTTGACCAC
TTGCCCATTTCACCATCAACTCTTCCTACTAATAATTTAATGCTGGATATTATATATTAA
AGTGTTTTTCTATTTAATTCCCATTTTTTACAAAATGTAAAAAACTTCTGTTTTGATTTC
TTTATTTACAAATAATTACAATAATTTAATTGTAAAATAGAAATTAAGATTATTAAAATG
CTATAAGCTTATTAAATTTGCTTCGATTTTACTTAATATATTCTTTATAAATTTATTTTA
TTCTAGG
>g9812.t4 Gene=g9812 Length=459
MFSEAYLEKRPLKRPKLGPADVYPQEVKQKEDELTSLNVKHGFSATIQSSEEFGTARNCN
VTASKVGAYFNAILAKKEELATLTDSGRKKQHVKDNFWPVTQRTKQTLDNWFKDLAGNKP
LSSLAKKAPSFNKKEEIFAMLCENQVTMQRAAWFIKLSSAYTVAVSEAKIKKRQMPDPAT
EWTGTMIKFLKDLVPKLLEYYHTGPPIEKPSSNISSNTNPSSNLNTSSSSSTSTLTIPPP
LASPAGSSSTSTSLIPIPATPQEEQKLALKQWNYCTQLCKYMFEEGLLDKHEFLNWILEL
LDKLRTQPQSEDGILKLYLPLTLAYMQDFVMSERLSRKLAYLSAKKLSSMLNDMLNHIII
DGNKNDQNSENKTGENGEIKNLNPYEKALEEYLTCCQHRDIIMQLSCILQVITLDCPTAL
IWSGVGENRQSTLTGSPLDHLPISPSTLPTNNLMLDIIY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g9812.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 209 | 253 | - |
| 3 | g9812.t4 | PANTHER | PTHR46007 | MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 12 | 2 | 449 | 6.9E-120 |
| 1 | g9812.t4 | Pfam | PF09497 | Transcription mediator complex subunit Med12 | 100 | 156 | 3.0E-18 |
| 2 | g9812.t4 | Pfam | PF12145 | Eukaryotic Mediator 12 subunit domain | 328 | 450 | 4.6E-41 |
| 4 | g9812.t4 | SMART | SM01281 | Med12_2 | 96 | 156 | 1.3E-30 |
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