Gene loci information

Transcript annotation

  • This transcript has been annotated as Mediator of RNA polymerase II transcription subunit 12.

Parent gene

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.t3 TSS g9812.t3 5355892 5355892
chr_1 g9812 g9812.t3 isoform g9812.t3 5355995 5357793
chr_1 g9812 g9812.t3 exon g9812.t3.exon1 5355995 5357344
chr_1 g9812 g9812.t3 cds g9812.t3.CDS1 5355995 5357344
chr_1 g9812 g9812.t3 exon g9812.t3.exon2 5357792 5357793
chr_1 g9812 g9812.t3 TTS g9812.t3 NA NA

Sequences

>g9812.t3 Gene=g9812 Length=1352
ATGTTTAGCGAGGCATATCTTGAGAAGCGTCCGCTAAAGAGGCCAAAATTAGGCCCGGCA
GACGTCTATCCGCAAGAAGTAAAGCAAAAAGAAGATGAGTTAACTTCTCTCAATGTAAAA
CACGGCTTTTCAGCCACGATTCAATCGAGTGAAGAATTTGGGACTGCCAGAAATTGTAAT
GTGACCGCCTCAAAGGTTGGCGCATATTTCAATGCAATTTTGGCCAAAAAAGAAGAACTT
GCGACGTTAACTGACTCAGGGCGTAAAAAACAACACGTAAAAGATAACTTTTGGCCTGTA
ACTCAAAGAACTAAGCAAACTTTAGACAATTGGTTTAAGGATTTAGCTGGAAATAAACCA
TTAAGTAGTTTAGCTAAGAAAGCACCGTCATTTAATAAAAAAGAGGAAATTTTCGCAATG
CTCTGTGAAAATCAAGTTACAATGCAAAGAGCTGCATGGTTTATTAAACTTTCATCAGCT
TATACAGTTGCAGTGTCAGAAGCGAAAATTAAAAAACGACAAATGCCTGATCCAGCAACT
GAATGGACAGGAACAATGATTAAATTTTTAAAAGATTTAGTACCGAAATTGCTTGAATAT
TATCATACAGGACCACCAATTGAAAAACCTTCATCAAACATTTCTTCTAATACTAATCCT
TCATCTAATCTCAATACAAGTTCTTCCTCATCTACATCAACATTAACTATACCACCGCCT
CTTGCTAGTCCAGCTGGTTCTTCGTCTACAAGCACTTCATTAATTCCAATTCCAGCAACA
CCACAAGAGGAGCAAAAATTGGCTTTAAAACAATGGAATTATTGTACGCAATTGTGTAAA
TACATGTTTGAGGAAGGACTTTTAGATAAACATGAGTTTCTAAATTGGATCCTTGAATTA
CTTGATAAACTTAGAACTCAGCCACAAAGTGAAGATGGAATACTCAAGCTTTATCTGCCA
CTAACTTTAGCTTATATGCAAGATTTTGTCATGTCAGAGCGATTGTCTAGAAAATTGGCA
TATTTATCAGCTAAAAAGCTCTCATCAATGCTTAATGACATGTTAAATCATATTATTATA
GATGGTAATAAAAATGATCAGAATTCAGAAAATAAGACTGGTGAAAATGGAGAAATAAAA
AATTTGAACCCTTATGAGAAGGCACTTGAAGAATATTTGACTTGTTGTCAACATAGAGAC
ATAATTATGCAATTGAGTTGTATTTTACAAGTTATAACACTTGATTGCCCAACAGCACTT
ATTTGGAGTGGTGTGGGTGAGAATCGACAATCGACATTGACCGGTAGTCCGCTTGACCAC
TTGCCCATTTCACCATCAACTCTTCCTATGCC

>g9812.t3 Gene=g9812 Length=450
MFSEAYLEKRPLKRPKLGPADVYPQEVKQKEDELTSLNVKHGFSATIQSSEEFGTARNCN
VTASKVGAYFNAILAKKEELATLTDSGRKKQHVKDNFWPVTQRTKQTLDNWFKDLAGNKP
LSSLAKKAPSFNKKEEIFAMLCENQVTMQRAAWFIKLSSAYTVAVSEAKIKKRQMPDPAT
EWTGTMIKFLKDLVPKLLEYYHTGPPIEKPSSNISSNTNPSSNLNTSSSSSTSTLTIPPP
LASPAGSSSTSTSLIPIPATPQEEQKLALKQWNYCTQLCKYMFEEGLLDKHEFLNWILEL
LDKLRTQPQSEDGILKLYLPLTLAYMQDFVMSERLSRKLAYLSAKKLSSMLNDMLNHIII
DGNKNDQNSENKTGENGEIKNLNPYEKALEEYLTCCQHRDIIMQLSCILQVITLDCPTAL
IWSGVGENRQSTLTGSPLDHLPISPSTLPM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g9812.t3 MobiDBLite mobidb-lite consensus disorder prediction 209 253 -
3 g9812.t3 PANTHER PTHR46007 MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 12 2 450 1.9E-120
1 g9812.t3 Pfam PF09497 Transcription mediator complex subunit Med12 100 156 2.9E-18
2 g9812.t3 Pfam PF12145 Eukaryotic Mediator 12 subunit domain 328 450 9.0E-42
4 g9812.t3 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